Evidence of residual feed intake reranking in crossbred replacement heifers.

The objective of the study was to examine whether residual feed intake (RFI) reranking exists between 2 consecutive periods in replacement heifers fed the same diet. The study collected feed intake and BW data from 190 crossbred heifers over a 3-yr period (61 in 2007, 68 in 2008, and 61 in 2009) during the winter-spring season. The heifers were fed a roughage-based diet (90% barley silage and 10% rolled barley grain) throughout the feeding trial, which was broken down into 2 feeding periods with ADG of 0.94 and 0.90 kg•d(-1) in the first and second periods, respectively. The RFI was calculated for the entire period using different models, which included ADG, mid-metabolic BW, body composition, and feeding activity. Gain:feed ratio and Kleiber ratio were also calculated. Rank correlations among the RFI calculated from different models were obtained, as well as rank correlations between the 2 feeding periods for the feed efficiency measures. Including body composition and feeding activity only improved the R(2) by 1 to 5%. The rank correlations among the different models were high (90 to 95%) for RFI calculated for the entire feeding period. However, the RFI calculated within the second feeding period had greater rank correlation than the RFI calculated from the entire feeding period. Compared with G:F and Kleiber ratio, RFI gave lesser reranking between periods 1 and 2. About 49% of the heifers maintained their RFI class, whereas 51% of the heifers had a different RFI class in period 2. Furthermore, 41% of the heifers changed their RFI in period 2 by <0.5 SD, whereas the rest of the heifers changed by ≥0.5 SD. These results indicate that reranking exists in heifers despite receiving the same diet in the 2 feeding periods and that the reranking may be more serious in heifers (28%) with extreme RFI performances in each period.

Accuracy of genomic breeding values for residual feed intake in crossbred beef cattle.

The benefit of using genomic breeding values (GEBV) in predicting ADG, DMI, and residual feed intake for an admixed population was investigated. Phenotypic data consisting of individual daily feed intake measurements for 721 beef cattle steers tested over 5 yr was available for analysis. The animals used were an admixed population of spring-born steers, progeny of a cross between 3 sire breeds and a composite dam line. Training and validation data sets were defined by randomly splitting the data into training and testing data sets based on sire family so that there was no overlap of sires in the 2 sets. The random split was replicated to obtain 5 separate data sets. Two methods (BayesB and random regression BLUP) were used to estimate marker effects and to define marker panels and ultimately the GEBV. The accuracy of prediction (the correlation between the phenotypes and GEBV) was compared between SNP panels. Accuracy for all traits was low, ranging from 0.223 to 0.479 for marker panels with 200 SNP, and 0.114 to 0.246 for marker panels with 37,959 SNP, depending on the genomic selection method used. This was less than accuracies observed for polygenic EBV accuracies, which ranged from 0.504 to 0.602. The results obtained from this study demonstrate that the utility of genetic markers for genomic prediction of residual feed intake in beef cattle may be suboptimal. Differences in accuracy were observed between sire breeds when the random regression BLUP method was used, which may imply that the correlations obtained by this method were confounded by the ability of the selected SNP to trace breed differences. This may also suggest that prediction equations derived from such an admixed population may be useful only in populations of similar composition. Given the sample size used in this study, there is a need for increased feed intake testing if substantially greater accuracies are to be achieved.

Associations of marker panel scores with feed intake and efficiency traits in beef cattle using preselected single nucleotide polymorphisms.

Because of the moderate heritability and the expense associated with collecting feed intake data, effective selection for residual feed intake would be enhanced if marker-assisted evaluation were used for accurate estimation of genetic merit. In this study, a suite of genetic markers predictive of residual feed intake, DMI, and ADG were preselected using single-marker regression analysis, and the top 100 SNP were analyzed further to provide prediction equations for the traits. The data used consisted of 728 spring-born beef steers, offspring of a cross between a composite dam line and Angus, Charolais, or University of Alberta hybrid bulls. Feed intake data were collected over a 5-yr period, with 2 groups (fall-winter and winter-spring) tested every year. Training and validation data sets were obtained by splitting the data into 2 distinct sets, by randomly splitting the data into training and testing sets based on sire family (split 1) in 5 replicates or by retaining all animals with no known pedigree relationships as the validation set (split 2). A total of 37,959 SNP were analyzed by single-marker regression, of which only the top 100 that corresponded to a P-value <0.002 were retained. The 100 SNP were then analyzed using random regression BLUP, and only SNP that were jointly significant (P < 0.05) were included in the final marker panels. The marker effects from the selected panels were used to derive the molecular breeding values, which were calculated as a weighted sum of the number of copies of the more frequent allele at each SNP locus, with the weights being the allele substitution effects. The correlation between molecular breeding value and phenotype represented the accuracy of prediction. For all traits evaluated, accuracy across breeds was low, ranging between 0.007 and 0.414. Accuracy was least in data split 2, where the validation individuals had no pedigree relationship with animals in the training data. Given the low predictive ability observed, a large number of individuals may be needed for prediction when using such an admixed population. Further, these results suggest that breed composition of the target population in which the marker panels are likely to be used should be an important consideration when developing prediction equations across breeds, especially where an admixed population is used as the training data set.

Phenotypic and genetic relationships among feeding behavior traits, feed intake, and residual feed intake in steers fed grower and finisher diets.

Data from a 3-yr feeding trial of crossbred steers (n = 331) were used to examine the relationship between feeding behavior traits and feed efficiency in steers fed grower and finisher diets, successively. There were 2 feeding periods each year whereby the steers were fed a grower diet in the first feeding period (P1) and a finisher diet in the second feeding period (P2). Each feeding period lasted for a minimum of 10 wk, ad libitum. In addition to feed intake, records on 3 measures of feeding behavior [feeding duration (FD), head-down time (HDT), and feeding frequency (FF)] were collected using the GrowSafe feeding system. Residual feed intake (RFI) was calculated by regression, after which the steers were classified as low (<0.5 SD), medium (±0.5 SD), or high (>0.5 SD) from the mean. The steers had greater (P < 0.001) FD, HDT, and FF when the grower diet was fed but greater feeding rate (FR) when the finisher diet was fed. Including the measures of feeding behavior as covariates to the feed intake prediction model containing ADG, metabolic midweight, and ultrasound backfat accounted for more variation in DMI than models that did not contain these additional parameters. The FD and HDT were significantly different (P < 0.05) among the RFI classes regardless of the feeding period, whereas no differences (P > 0.90) were found for FR among the RFI classes. For the growing period and finishing period, respectively, FD had phenotypic correlations with HDT (0.79, 0.83), FF (0.14, 0.55), DMI (0.38, 0.34), and FR (-0.34, -0.21). Heritability estimates in P1 and P2 for FD, HDT, and FF were 0.25 ± 0.16, 0.14 ± 0.11; 0.14 ± 0.15, 0.09 ± 0.10; and 0.56 ± 0.19, 0.59 ± 0.18, respectively. Genetic correlations between P1 and P2 were 0.91 ± 0.26, 0.93 ± 0.37, and 0.94 ± 0.11 for FD, HDT, and FF, respectively. The results suggest that it may be appropriate to include feeding behavior traits as covariates to indicate measure(s) of animal activity in the calculation of RFI. Feeding behavior phenotypes were greater during the grower-fed period than the finisher-fed period. During these feeding periods, efficient steers exhibited fewer FF, shorter FD, and shorter HDT than inefficient steers.

Genetic parameters and genotype x environment interaction for feed efficiency traits in steers fed grower and finisher diets.

The objective of this study was to examine the genetic parameters and genetic correlations of feed efficiency traits in steers (n = 490) fed grower or finisher diets in 2 feeding periods. A bivariate model was used to estimate phenotypic and genetic parameters using steers that received the grower and finisher diets in successive feeding periods, whereas a repeated animal model was used to estimate the permanent environmental effects. Genetic correlations between the grower-fed and finisher-fed regimens were 0.50 ± 0.48 and 0.78 ± 0.43 for residual feed intake (RFI) and G:F, respectively. The moderate genetic correlation between the 2 feeding regimens may indicate the presence of a genotype × environment interaction for RFI. Permanent environmental effects (expressed in percentage of phenotypic variance) were detected in the grower-fed steers for ADG (38%), DMI (30%), RFI (18%), and G:F (40%) and also in the finisher-fed steers for ADG (28%), DMI (35%), metabolic mid-weight (23%), and RFI (10%). Heritability estimates were 0.08 ± 0.10 and 0.14 ± 0.15 for the grower-fed steers and 0.42 ± 0.16 and 0.40 ± 17 for the finisher-fed steers for RFI and G:F, respectively. The dependency of the RFI on the feeding regimen may have serious implications when selecting animals in the beef industry. Because of the higher cost of grains, feed efficiency in the feedlot might be overemphasized, whereas efficiency in the cow herd and the backgrounding segments may have less emphasis. These results may also favor the retention (for subsequent breeding) of cows whose steers were efficient in the feedlot sector. Therefore, comprehensive feeding trials may be necessary to provide more insight into the mechanisms surrounding genotype × environment interaction in steers.

Feed efficiency differences and reranking in beef steers fed grower and finisher diets.

This 3-yr study used 490 steers to determine whether feedlot steers changed their feed efficiency (FE) ranking when fed a grower diet, then a finisher diet. The steers were crossbreds and were between 5 to 7 mo of age. There were 2 feeding periods each year. Within each year, approximately 90 steers had their diet switched from a grower to a finisher diet (feed-swap group), whereas another 90 steers were fed either the grower (grower-fed group) or the finisher (finisher-fed group) diet throughout the feeding trial. Each feeding test lasted for a minimum of 10 wk, and all steers were fed ad libitum. Individual animal feed intakes were collected using the GrowSafe feeding system, and BW were measured every 2 wk. Residual feed intake (RFI), G:F, and Kleiber ratio (KR) were computed at the end of each feeding period. For each measure of efficiency, animals were classified as low, medium, or high based on 0.5 SD from the mean. The majority of steers did not maintain the previous efficiency class in the second period. Approximately 58, 51, and 51% of steers in the feed-swap group, finisher-fed group, and the grower-fed group, respectively, changed their RFI measure by 0.5 SD. A low rank correlation occurred in all test groups but was less in the feed-swap group. Spearman rank correlations between the 2 feeding periods in the feed-swap group were 0.33, 0.20, and 0.31 for RFI, G:F, and KR, respectively. Classifications based on G:F and KR showed that a greater number of steers (P < 0.05) in the feed-swap group did not maintain their FE class from 1 feeding regimen to the other, whereas classification based on RFI did not show any difference (P > 0.05) between the proportions of individuals that changed or maintained their FE class. In the groups without a feed-swap, there was no difference (P > 0.05) in the proportion of steers that changed or maintained the same FE class for all FE measures. Our results suggest that diet type and feeding period affect the FE ranking in beef steers. A feedlot diet is ideal for evaluating the FE potential of steers for feedlot profitability; however, we suggest that tests involving less dense diets should be examined in an effort to understand the relationships between FE and feeder profitability.