Feed Efficiency Traits Research Articles

275 Phenotypic relationships between heart score and feed efficiency, carcass, and pulmonary arterial pressure traits

Abstract Pulmonary hypertension (PH) can lead to premature mortality in fed cattle and is often called Feedlot Heart Disease (FHD). To date, pulmonary arterial pressure (PAP) has been the only indicator trait of PH that has been evaluated. The objective of this study was to evaluate relationships between heart score (using heart score as a phenotype for PH) and PAP, carcass, and feed efficiency traits in fattening Angus steers. Our hypothesis was that feed efficiency and carcass traits, along with PAP, would demonstrate a strong relationship with heart score. Feed efficiency, carcass, PAP and heart score data from 89 Black Angus steers from Colorado State University Beef Improvement Center were collected and used for this study. Evaluations were performed using a multiple linear regression model, which included heart score as a categorical fixed effect and age as a continuous fixed effect. Least Square Means, pairwise comparisons, and ANOVA tables were constructed per trait. PAP (P < 0.001) showed an important relationship to heart score and average dry matter (P < 0.10) intake approached importance to heart score. In general, feed efficiency and carcass traits decreased as heart score increased, but PAP was the only trait with a strong relationship to heart score (P < 0.05). This led us to reject our hypothesis.

PSIII-10 The association of genes involved in mitochondrial function with growth, size, and feed efficiency traits in developing beef heifers

Abstract The objective was to determine if genetic markers related to mitochondrial function are associated with growth and feed intake of Bos taurus heifers fed forage-based diets. Weight data collected at birth, weaning, and as yearlings were available on 373 heifers. As yearlings, feed intake was measured using an Insentec system. Primary ancestral breeds of heifers included 204 British, 66 Continental European, 68 American Aberdeen, 29 British mix, and 6 American Aberdeen mix. Traits included DMI, ADG, G:F, adjusted birth weight (BWT), adjusted 205 weaning weight (WW), and average of start and end feed trial weight (FWT) and body volume (VOL). Heifers were genotyped using Neogen GGP150HD for beef cattle. Markers (n=56) were extracted if located within or flanking AMPK, PPARGC1A, FGF2, and SIRT1 or on mitochondrial DNA using ARS-UCD1.2 coordinates. After quality checks (minor allele frequency and call rate), 44 markers remained. No mitochondrial markers passed quality checks. For each trait, each marker was fit independently as a fixed effect in a model including year and group based on frame score (n=4), ancestry (n=5), and dam age (n=4; non-adjusted traits only). Pairwise comparisons were done using Tukey-Kramer method. No markers within FGF2 or SIRT1 had significant associations. Two markers were found significant for PPARGC1A, where Hapmap24121-BTC-039009 (P=0.0344) showed the C allele increased DMI. For weight traits, significant markers surrounding AMPK and within PPARGC1A (n=5; 0.0009≤P≤ 0.0468) identified dominance gene actions that indicate certain variants of the AMPK and PPARGC1A increased weight across time-points. For VOL, 16 of 22 markers within PPARGC1A were significant (0.0068≤P≤0.0467). Of the 16 markers, 14 identified a recessive variant that increased volume, but did not translate to increased weight. Further research is needed to better understand the roles that genetic markers for AMPK and PPARGC1A have on tissue level mitochondrial function and energy metabolism.

367 Role of skeletal muscle satellite cells in the broiler chicken Wooden Breast myopathy

Abstract To meet the huge global demand for chicken meat, the commercial broiler industry has placed tremendous genetic selection pressure on breast meat yield, growth rate, and feed efficiency traits and has made remarkable improvements over the last 30 years. Unfortunately, along with those tremendous improvements has come a severe meat quality defect whose cause has yet to be elucidated. The Wooden (or Woody) Breast (WB) meat quality defect is characterized by visible bulging of the breast fillet with extreme hardness to the touch. The WB phenotype has been characterized by histopathologists as a degenerative myopathy in which excessive fibrotic tissue infiltration occurs. Skeletal muscle stem cells, also called satellite cells (MSC), play a critical role in post-hatch broiler skeletal muscle growth, repair, and maintenance. Yet the relationship between MSC function in high-yielding broilers and the development of the WB myopathy is still not well understood. Recent work using in vivo cell labeling, cryohistology, and immunofluorescence techniques demonstrates that the relative size and mitotic activity of the various MSC and macrophage populations and collagen deposition are altered in WB-affected muscle. Alterations in myogenic regulatory factor, collagen, and pro- and anti-inflammatory cytokine protein expression in WB-affected muscles have also been observed using quantitative fluorescent Western blotting. These data suggest the involvement of aberrant MSC function in the development of WB myopathy. Future work aimed at determining whether the apparent MSC dysfunction in WB-affected broilers is due to an issue with the MSC themselves and/or their environment will be accomplished using a combination of MSC isolation, labeling, transplant, and tracking strategies. Further exploration will also be required to understand how the local cell signaling mechanisms and cell population kinetics are related to the severity and timing of the development of the WB myopathy in today’s fast-growing, high-yielding broilers.

PSI-36 Phenotypic Relationship of Feed Efficiency and Fertility in Angus and Red Angus Bulls

Abstract Recent advances in measuring feed intake improve selection for efficient beef bulls; however, such selection must not decrease bull fertility. Objectives herein were to determine the phenotypic relationship between feed efficiency and fertility traits in growing Angus (n = 14) and Red Angus (n = 14) bulls. Two feeding trials were conducted at the CSU, Chico University Farm in 2017 (87 d) and 2018 (84 d). Each year, bulls were randomly assigned to 7 x 18 m pens equipped with GrowSafe feed intake units and allowed ad libitum access to water and feed (CP: 15.6%, TDN: 56.22%, NDF: 52%, DM basis). Performance traits included: feed conversion ratio (FCR) and residual feed intake [RFI; measured as the difference between predicted dry matter intake (PDMI) and actual dry matter intake (DMI)], start weight (SWT), end weight (EWT), metabolic mid-weight (MMWT), residual gain and average daily gain (ADG). Breeding soundness exams (BSE) were conducted at 18 mo of age and included traits: scrotal circumference (SC), motility (MT), and morphology (MP). Residual feed intake was calculated by regressing DMI on ADG and MMWT. The RFI group was categorized as low (0.5 SD above the RFI mean), marginal (± 0.5 SD about the RFI mean), and high (0.5 SD above the RFI mean) by year. Data were analyzed using ANOVA, blocking on year-pen and fitting breed and RFI group as independent factors. Tukey pairwise contrasts were run. Motility among breeds and RFI group were analyzed using chi-square. Pearson correlations were calculated between growth, feed efficiency, and BSE measures of SC and MP. There were no differences (P > 0.05) among breeds nor RFI groups for SWT, EWT, MMWT, residual gain, SC, and MT. No interaction was detected between breed and RFI group with exception of MP (P = 0.049); specifically, low RFI Red Angus bulls had poor MP compared to marginal and high RFI groups (66.94 ± 6.87 vs. 87.43 ± 3.77 and 93.74 ± 5.48 %, respectively). Angus bulls were superior to Red Angus bulls in ADG (1.23 ± 0.04 vs. 1.06 ± 0.05 kg/d; P = 0.01), FCR (7.98 ± 0.31 vs. 9.18 ± 0.38; P = 0.04), and RFI (-0.24 ± 0.09 vs. 0.09 ± 0.11 kg DMI/d; P = 0.04). High and marginal RFI groups had greater DMI compared to low RFI group (10.40 ± 0.26 and 9.64 ± 0.18 kg/d vs. 8.31 ± 0.32 kg/d; P < 0.001). There were no significant phenotypic correlations between growth and efficiency measures with SC and MP (P > 0.05). Cumulatively, results indicate that SC and MT were not affected in efficient bulls.

Genomic regions and signaling pathways associated with indicator traits for feed efficiency in juvenile Atlantic salmon (Salmo salar)

BackgroundOne objective of this study was to identify putative quantitative trait loci (QTL) that affect indicator phenotypes for growth, nitrogen, and carbon metabolism in muscle, liver, and adipose tissue, and for feed efficiency. Another objective was to perform an RNAseq analysis (184 fish from all families), to identify genes that are associated with carbon and nitrogen metabolism in the liver. The material consisted of a family experiment that was performed in freshwater and included 2281 individuals from 23 full-sib families. During the 12-day feed conversion test, families were randomly allocated to family tanks (50 fish per tank and 2 tanks per family) and fed a fishmeal-based diet labeled with the stable isotopes 15N and 13C at inclusion levels of 2 and 1%, respectively.ResultsUsing a linear mixed-model algorithm, a QTL for pre-smolt growth was identified on chromosome 9 and a QTL for carbon metabolism in the liver was identified on chromosome 12 that was closely related to feed conversion ratio on a tank level. For the indicators of feed efficiency traits that were derived from the stable isotope ratios (15N and 13C) of muscle tissue and growth, no convincing QTL was detected, which suggests that these traits are polygenic. The transcriptomic analysis showed that high carbon and nitrogen metabolism was associated with individuals that convert protein from the feed more efficiently, primarily due to higher expression of the proteasome, lipid, and carbon metabolic pathways in liver. In addition, we identified seven transcription factors that were associated with carbon and nitrogen metabolism and located in the identified QTL regions.ConclusionsAnalyses revealed one QTL associated with pre-smolt growth and one QTL for carbon metabolism in the liver. Both of these traits are associated with feed efficiency. However, more accurate mapping of the putative QTL will require a more diverse family material. In this experiment, fish that have a high carbon and nitrogen metabolism in the liver converted protein from the feed more efficiently, potentially because of a higher expression of the proteasome, lipid, and carbon metabolic pathways in liver. Within the QTL regions, we detected seven transcription factors that were associated with carbon and nitrogen metabolism.

Effects of dietary sucrose levels on the ingestive behavior, blood parameters, and performance of feedlot lambs

Abstract The addition of sucrose to the diet may accelerate rumen development and improve the utilization of dietary protein, thus increasing lamb performance. This study aimed to evaluate the effects of four dietary sucrose levels on the ingestive behavior, blood parameters, and performance of crossbred Dorper lambs fed on feedlot. Twenty-four non-castrated male lambs with a mean age of 4 months and a body weight (BW) of 26.06 ± 0.77 kg were allocated to individual pens. The trial was accomplished in a completely randomized design with four treatments and six replicates, and the treatments were a diet without sucrose (control) and the inclusion of 15, 30, and 45 g/kg of sucrose in the concentrate feed, on a dry matter (DM) basis. The diets were composed of 400 g/kg DM of Tifton 85 hay (Cynodon spp.) and 600 g/kg DM of pelleted concentrate feed, and contained 177 g/kg DM of crude protein (CP) and 2.75 Mcal/kg DM of digestible energy (DE), on average. The diets were supplied as total mixed ration, and the lambs were fed ad libitum for 56 days. The time spent in rumination increased linearly, whereas the time in idleness decreased linearly with addition of sucrose up to 45 g/kg DM of concentrate. The time spent feeding and on water intake were not affected by sucrose levels. The proportion of particles larger than 7.8 mm and smaller than 19 mm of orts showed a quadratic response to sucrose levels, indicating an influence of this sugar on the selective behavior of lambs during feeding. The pH of rumen fluid and the papillae height in the rumen epithelium were not influenced by sucrose levels, nor were blood metabolites. Neutral detergent fiber intake increased linearly with addition of sucrose up to 45 g/kg DM of concentrate, whereas the performance and feed efficiency traits were not affected by sucrose levels, nor were CP and DE intake. Addition of sucrose up to 45 g/kg DM of concentrate feed reduces the palatability of the diet, leading the lambs to partially reject the concentrate and increase their fiber intake from hay. Under this condition, rumination activity is intensified, but rumen pH and papillae height of the rumen epithelium, the blood biochemical profile, performance, and feed efficiency are not affected.

Estimation of the genetic parameters of traits relevant to feed efficiency: result from broiler lines divergent for high or low abdominal fat content

Feed consumption represents a major cost in poultry production and improving feed efficiency is one of the important goals in breeding strategies. The present study aimed to analyze the relationship between feed efficiency and relevant traits and find the proper selection method for improving feed efficiency by using the Northeast Agricultural University High and Low Fat broiler lines that were divergently selected for abdominal fat content. A total of 899 birds were used to measure the feed intake (FI), abdominal fat weight (AFW), and body weight traits. The abdominal fat percentage (AFP), feed conversion ratio (FCR), and the residual feed intake (RFI) were calculated for each individual broiler. The differences in the AFW, AFP, and in traits relevant to feed efficiency, such as FCR and RFI, between the fat line and the lean line were analyzed, and the genetic parameters were estimated for AFW, AFP, and feed efficiency relevant traits. The results showed that AFW, AFP, body weight gain (BWG), FI, FCR, and RFI were significantly higher in the fat line compared with the lean line. The heritability of FI, BWG, FCR, RFI, AFW, and AFP were 0.45, 0.28, 0.36, 0.38, 0.33, and 0.30, respectively. Both FCR and RFI showed high positive genetic correlations with FI, AFW, and AFP and relatively low, negative genetic correlations with BWG. The RFI showed much higher positive genetic correlation with the abdominal fat traits than FCR. In addition, the FCR showed negative genetic correlation with body weight of 4 wk (BW4) and 7 wk (BW7), whereas RFI showed positive genetic correlation with BW4 and BW7. The results showed that both RFI and FCR could be used for improving feed efficiency. When selecting against RFI, the AFP could be significantly reduced, and by selecting against FCR, the body weight could be improved simultaneously.

Genetic association among feeding behavior, feed efficiency, and growth traits in growing indicine cattle.

This study aimed to estimate genetic parameters, including genomic data, for feeding behavior, feed efficiency, and growth traits in Nellore cattle. The following feeding behavior traits were studied (861 animals with records): time spent at the feed bunk (TF), duration of one feeding event (FD), frequency of visits to the bunk (FF), feeding rate (FR), and dry matter intake (DMI) per visit (DMIv). The feed efficiency traits (1,543 animals with records) included residual feed intake (RFI), residual weight gain (RWG), and feed conversion (FC). The growth traits studied were average daily gain (ADG, n = 1,543 animals) and selection (postweaning) weight (WSel, n = 9,549 animals). The (co)variance components were estimated by the maximum restricted likelihood method, fitting animal models that did (single-step genomic best linear unbiased prediction) or did not include (best linear unbiased prediction) genomic information in two-trait analyses. The direct responses to selection were calculated for the feed efficiency traits, ADG, and WSel, as well as the correlated responses in feed efficiency and growth by direct selection for shorter TF. The estimated heritabilities were 0.51 ± 0.06, 0.35 ± 0.06, 0.27 ± 0.07, 0.34 ± 0.06, and 0.33 ± 0.06 for TF, FD, FF, FR, and DMIv, respectively. In general, TF and FD showed positive genetic correlations with all feed efficiency traits (RFI, RWG, and FC), ADG, DMI, and WSel. Additionally, TF showed high and positive genetic and phenotypic correlations with RFI (0.71 ± 0.10 and 0.46 ± 0.02, respectively) and DMI (0.56 ± 0.09 and 0.48 ± 0.03), and medium to weak genetic correlations with growth (0.32 ± 0.11 with ADG and 0.14 ± 0.09 with WSel). The results suggest that TF is a strong indicator trait of feed efficiency, which exhibits high heritability and a weak positive genetic correlation with growth. In a context of a selection index, the inclusion of TF to select animals for shorter TF may accelerate the genetic gain in feed efficiency by reducing RFI but with zero or slightly negative genetic gain in growth traits.

The impact of training on data from genetically-related lines on the accuracy of genomic predictions for feed efficiency traits in pigs

BackgroundMost genomic predictions use a unique population that is split into a training and a validation set. However, genomic prediction using genetically heterogeneous training sets could provide more flexibility when constructing the training sets in small populations. The aim of our study was to investigate the potential of genomic prediction of feed efficiency related traits using training sets that combine animals from two different, but genetically-related lines. We compared realized prediction accuracy and prediction bias for different training set compositions for five production traits.ResultsGenomic breeding values (GEBV) were predicted using the single-step genomic best linear unbiased prediction method in six scenarios applied iteratively to two genetically-related lines (i.e. 12 scenarios). The objective for all scenarios was to predict GEBV of pigs in the last three generations (~ 400 pigs, G7 to G9) of a given line. For each line, a control scenario was set up with a training set that included only animals from that line (target line). For all traits, adding more animals from the other line to the training set did not increase prediction accuracy compared to the control scenario. A small decrease in prediction accuracies was found for average daily gain, backfat thickness, and daily feed intake as the number of animals from the target line decreased in the training set. Including more animals from the other line did not decrease prediction accuracy for feed conversion ratio and residual feed intake, which were both highly affected by selection within lines. However, prediction biases were systematic for these cases and might be reduced with bivariate analyses.ConclusionsOur results show that genomic prediction using a training set that includes animals from genetically-related lines can be as accurate as genomic prediction using a training set from the target population. With combined reference sets, accuracy increased for traits that were highly affected by selection. Our results provide insights into the design of reference populations, especially to initiate genomic selection in small-sized lines, for which the number of historical samples is small and that are developed simultaneously. This applies especially to poultry and pig breeding and to other crossbreeding schemes.

Genetics of digestive efficiency in growing pigs fed a conventional or a high‐fibre diet

The use of diets with increased dietary fibre content (HF) from alternative feedstuffs is a solution to limit the impact of increased feed costs on pig production. This study aimed at determining the impact of an alternative HF diet on pig digestibility and at estimating genetic parameters of this trait. Digestibility coefficients (DC) of energy, organic matter and nitrogen were predicted from faecal samples analysed with near infrared spectrometry for 1,242 samples, and it represented 654 Large White pigs fed a conventional (CO) diet and 588 fed a HF diet. Growth and feed efficiency traits, carcass composition and meat quality traits were recorded. Pigs fed the HF diet had significantly lower DC than pigs fed the CO diet (−4.5 to 6.0 points). The DC were moderately to highly heritable (about 0.26 ± 0.12 and 0.54 ± 0.15 in the CO and the HF diet, respectively). Genetic correlations were favourable with feed conversion ratio, daily feed intake and residual feed intake, but unfavourable with average daily gain (ADG) and carcass yield (CY). To conclude, DC could be an interesting trait to include in future breeding objectives if pigs were fed diet with HF diets, but adverse genetic trends with ADG and CY would have to be taken into account.

Genetic parameters and correlations of related feed efficiency, growth, and carcass traits in Hanwoo beef cattle.

ObjectiveThis study aimed to estimate the genetic parameters and genetic correlations for related feed efficiency, growth, and carcass traits in Hanwoo cattle.MethodsPhenotypic data from 15,279 animals born between 1989 and 2015 were considered. The related feed efficiency traits considered were Kleiber ratio (KR) and relative growth rate (RGR). Carcass traits analyzed were backfat thickness (BT), carcass weight, eye muscle area, and marbling score. Growth traits were assessed by the average daily gain (ADG), metabolic body weight (MBW) at mid-test age from 6 to 24 months, and yearling weight (YW). Variance and covariance components were estimated using restricted maximum likelihood using nine multi-trait animal models.ResultsThe heritability estimates for related feed efficiency (0.28±0.04 for KR and RGR) and growth traits (0.26±0.02 to 0.33±0.04) were moderate, but the carcass traits tended to be higher (0.38±0.04 to 0.61±0.06). The related feed efficiency traits were positively genetically correlated with all the carcass traits (0.37±0.09 to 0.47±0.07 for KR, and 0.14±0.09 to 0.37±0.09 for RGR), except for BT, which showed null to weak correlation. Conversely, the genetic correlations of RGR with MBW (−0.36±0.08) and YW (−0.30±0.08) were negative, and those of KR with MBW and YW were close to zero, whereas the genetic correlations of ADG with RGR (0.40±0.08) and KR (0.70±0.05) were positive and relatively moderate to high. The genetic (0.92±0.02) correlations between KR and RGR were very high.ConclusionSufficient genetic variability and heritability were observed for traits of interest. Moreover, the inclusion of KR and/or RGR in Hanwoo cattle breeding programs could improve the feed efficiency without producing any unfavorable effects on the carcass traits.

Rumen Microbiome Composition Is Altered in Sheep Divergent in Feed Efficiency.

Rumen microbiome composition and functionality is linked to animal feed efficiency, particularly for bovine ruminants. To investigate this in sheep, we compared rumen bacterial and archaeal populations (and predicted metabolic processes) of sheep divergent for the feed efficiency trait feed conversion ratio (FCR). In our study 50 Texel cross Scottish Blackface (TXSB) ram lambs were selected from an original cohort of 200 lambs. From these, 26 were further selected for experimentation based on their extreme FCR (High Feed Efficiency, HFE = 13; Low Feed Efficiency, LFE = 13). Animals were fed a 95% concentrate diet ad libitum over 36 days. 16S rRNA amplicon sequencing was used to investigate the rumen bacterial and archaeal communities in the liquid and solid rumen fractions of sheep divergent for FCR. Weighted UniFrac distances separated HFE and LFE archaea communities from the liquid rumen fraction (Permanova, P < 0.05), with greater variation observed for the LFE cohort (Permdisp, P < 0.05). LFE animals exhibited greater Shannon and Simpson diversity indices, which was significant for the liquid rumen fraction (P < 0.05). Methanobrevibacter olleyae (in liquid and solid fractions) and Methanobrevibacter millerae (liquid fraction) were differentially abundant, and increased in the LFE cohort (P.adj < 0.05), while Methanobrevibacter wolinii (liquid fraction) was increased in the HFE cohort (P.adj < 0.05). This suggests that methanogenic archaea may be responsible for a potential loss of energy for the LFE cohort. Bacterial community composition (Permanova, P > 0.1) and diversity (P > 0.1) was not affected by the FCR phenotype. Only the genus Prevotella 1 was differentially abundant between HFE and LFE cohorts. Although no major compositional shifts of bacterial populations were identified amongst the feed efficient cohorts (FDR > 0.05), correlation analysis identified putative drivers of feed efficiency with Ruminococcaceae UCG-014 (liquid, rho = −0.53; solid, rho = −0.56) and Olsenella (solid, rho = −0.40) exhibiting significant negative association with FCR (P < 0.05). Bifidobacterium and Megasphaera showed significant positive correlations with ADG. Major cellulolytic bacteria Fibrobacter (liquid, rho = 0.43) and Ruminococcus 1 (liquid, rho = 0.41; solid, rho = 41) correlated positively with FCR (P < 0.05). Our study provides evidence that feed efficiency in sheep is likely influenced by compositional changes to the archaeal community, and abundance changes of specific bacteria, rather than major overall shifts within the rumen microbiome.

Infrared Spectrometry as a High-Throughput Phenotyping Technology to Predict Complex Traits in Livestock Systems.

High-throughput phenotyping technologies are growing in importance in livestock systems due to their ability to generate real-time, non-invasive, and accurate animal-level information. Collecting such individual-level information can generate novel traits and potentially improve animal selection and management decisions in livestock operations. One of the most relevant tools used in the dairy and beef industry to predict complex traits is infrared spectrometry, which is based on the analysis of the interaction between electromagnetic radiation and matter. The infrared electromagnetic radiation spans an enormous range of wavelengths and frequencies known as the electromagnetic spectrum. The spectrum is divided into different regions, with near- and mid-infrared regions being the main spectral regions used in livestock applications. The advantage of using infrared spectrometry includes speed, non-destructive measurement, and great potential for on-line analysis. This paper aims to review the use of mid- and near-infrared spectrometry techniques as tools to predict complex dairy and beef phenotypes, such as milk composition, feed efficiency, methane emission, fertility, energy balance, health status, and meat quality traits. Although several research studies have used these technologies to predict a wide range of phenotypes, most of them are based on Partial Least Squares (PLS) and did not considered other machine learning (ML) techniques to improve prediction quality. Therefore, we will discuss the role of analytical methods employed on spectral data to improve the predictive ability for complex traits in livestock operations. Furthermore, we will discuss different approaches to reduce data dimensionality and the impact of validation strategies on predictive quality.

Genome-wide association study for feed efficiency in collective cage-raised rabbits under full and restricted feeding.

SummaryFeed efficiency (FE) is one of the most economically and environmentally relevant traits in the animal production sector. The objective of this study was to gain knowledge about the genetic control of FE in rabbits. To this end, GWASs were conducted for individual growth under two feeding regimes (full feeding and restricted) and FE traits collected from cage groups, using 114 604 autosome SNPs segregating in 438 rabbits. Two different models were implemented: (1) an animal model with a linear regression on each SNP allele for growth trait; and (2) a two‐trait animal model, jointly fitting the performance trait and each SNP allele content, for FE traits. This last modeling strategy is a new tool applied to GWAS and allows information to be considered from non‐genotyped individuals whose contribution is relevant in the group average traits. A total of 189 SNPs in 17 chromosomal regions were declared to be significantly associated with any of the five analyzed traits at a chromosome‐wide level. In 12 of these regions, 20 candidate genes were proposed to explain the variation of the analyzed traits, including genes such as FTO, NDUFAF6 and CEBPA previously associated with growth and FE traits in monogastric species. Candidate genes associated with behavioral patterns were also identified. Overall, our results can be considered as the foundation for future functional research to unravel the actual causal mutations regulating growth and FE in rabbits.

Weighted single-step genome-wide association study and pathway analyses for feed efficiency traits in Nellore cattle.

The aim was to conduct a weighted single-step genome-wide association study to detect genomic regions and putative candidate genes related to residual feed intake, dry matter intake, feed efficiency (FE), feed conversion ratio, residual body weight gain, residual intake and weight gain in Nellore cattle. Several protein-coding genes were identified within the genomic regions that explain more than 0.5% of the additive genetic variance for these traits. These genes were associated with insulin, leptin, glucose, protein and lipid metabolisms; energy balance; heat and oxidative stress; bile secretion; satiety; feed behaviour; salivation; digestion; and nutrient absorption. Enrichment analysis revealed functional pathways (p-value<.05) such as neuropeptide signalling (GO:0007218), negative regulation of canonical Wingless/Int-1 (Wnt) signalling (GO:0090090), bitter taste receptor activity (GO:0033038), neuropeptide hormone activity (GO:0005184), bile secretion (bta04976), taste transduction (bta0742) and glucagon signalling pathway (bta04922). The identification of these genes, pathways and their respective functions should contribute to a better understanding of the genetic and physiological mechanisms regulating Nellore FE-related traits.

A Genome-Wide Association Study on Feed Efficiency Related Traits in Landrace Pigs.

Feed efficiency (FE) traits in pigs are of utmost economic importance. Genetic improvement of FE related traits in pigs might significantly reduce production cost and energy consumption. Hence, our study aimed at identifying SNPs and candidate genes associated with FE related traits, including feed conversion ratio (FCR), average daily gain (ADG), average daily feed intake (ADFI), and residual feed intake (RFI). A genome-wide association study (GWAS) was performed for the four FE related traits in 296 Landrace pigs genotyped with PorcineSNP50 BeadChip. Two different single-trait methods, single SNP linear model GWAS (LM-GWAS) and single-step GWAS (ssGWAS), were implemented. Our results showed that the two methods showed high consistency with respect to SNP identification. A total of 32 common significant SNPs associated with the four FE related traits were identified. Bioinformatics analysis revealed eight common QTL regions, of which three QTL regions related to ADFI and RFI traits were overlapped. Gene ontology analysis revealed six common candidate genes (PRELID2, GPER1, PDX1, TEX2, PLCL2, ICAM2) relevant for the four FE related traits. These genes are involved in the processes of fat synthesis and decomposition, lipid transport process, insulin metabolism, among others. Our results provide, new insights into the genetic mechanisms and candidate function genes of FE related traits in pigs. However, further investigations to validate these results are warranted.

Large variability in feeding behavior among crossbred growing cattle.

The purpose of this study was to define an extensive suite of feeding behavior traits in growing crossbred cattle and to investigate their phenotypic inter-relationships as well as relationships with other performance and efficiency traits. Time-series feeding behavior data, as well as feed intake and liveweight records, were available for 624 growing crossbred cattle, of which 445 were steers and 179 were heifers. Feeding behavior repeatability estimates were calculated using linear mixed models. Additionally, partial Spearman correlations were estimated among 14 feeding behavior traits, as well as between feeding behavior with both performance and feed efficiency traits, using residuals retained from linear mixed models. The marginal contribution of several feeding behavior traits to the variability in metabolizable energy intake (MEI) was also determined. Repeatability estimates of 0.57, 0.36, and 0.48 were calculated for the number of feed events per day, the total time spent feeding per day, and the feeding rate, respectively. Cattle that ate more frequently each day, ate at a faster rate and consumed less energy in each visit to the feed bunk. More efficient cattle fed less often per day and fed for a shorter duration per day; they also had a slower feeding rate and fed for longer in each visit to the feed bunk. Moreover, heavier cattle fed for a longer duration per day had a faster feeding rate, but fed less often per day; heavier animals also fed first in the pen after the fresh feed was offered. The number of feed events per day and feeding time per day together explained an additional 13.4 percentage points of the variability in MEI above that already explained by all of growth rate, liveweight, and backfat depth. The results from the present study suggest that several repeatable time-series-related feeding behavior traits, that are less resource intensive to measure, may have a role as useful predictor traits of important but relatively difficult to record traits, such as feed intake and efficiency.

Feed and production efficiency of young crossbred beef cattle stratified on a terminal total merit index.

Few studies have attempted to quantify the association between a terminal total merit index with phenotypic feed and production efficiency in beef cattle, particularly when feed efficiency is itself explicitly absent as a goal trait in the index. The objective of the present study was to quantify the differences in phenotypic performance for feed intake, feed efficiency, and carcass traits of crossbred bulls, steers, and heifers differing in a terminal total merit index. A validation population of 614 bulls, steers, and heifers that were evaluated for feed intake and efficiency in the same feedlot and subsequently slaughtered at the end of their test period was constructed. The Irish national genetic evaluations for a terminal index of calving performance, docility, feed intake, and carcass traits were undertaken with the phenotypic records of animals present in the validation population masked. The validation population animals were subsequently stratified into four groups, within sex, according to their terminal index value. Mixed models were used to quantify the association between terminal genetic merit and phenotypic performance; whether the associations differed by sex were also investigated. The regression coefficient of phenotypic feed intake, carcass weight, carcass conformation, or carcass fat on its respective estimated breeding values was 0.86 kg dry matter 0.91 kg, 1.01 units, and 1.29 units, respectively, which are close to the expectation of one. On average, cattle in the very high terminal index stratum had a 0.63 kg DM/d lower feed intake, a 25.05 kg heavier carcass, a 1.82 unit better carcass conformation (scale 1 to 15), and a 1.24 unit less carcass fat score (scale 1 to 15), relative to cattle in the very low terminal index stratum. Cattle of superior total genetic merit were also more feed efficient (i.e., had a lower energy conversion ratio, lower residual feed intake, and greater residual gain), had a greater proportion of their live-weight as carcass weight (i.e., better dressing percentage) and were slaughtered at a younger age relative to their inferior total genetic merit counterparts. This study provides validation of an all-encompassing total merit index and demonstrates the benefits of selection on a total merit index for feed and production efficiency, which should impart confidence among stakeholders in the contribution of genetic selection to simultaneous improvements in individual animal performance and efficiency.

New insights into the associations among feed efficiency, metabolizable efficiency traits and related QTL regions in broiler chickens

BackgroundImproving the feed efficiency would increase profitability for producers while also reducing the environmental footprint of livestock production. This study was conducted to investigate the relationships among feed efficiency traits and metabolizable efficiency traits in 180 male broilers. Significant loci and genes affecting the metabolizable efficiency traits were explored with an imputation-based genome-wide association study. The traits measured or calculated comprised three growth traits, five feed efficiency related traits, and nine metabolizable efficiency traits.ResultsThe residual feed intake (RFI) showed moderate to high and positive phenotypic correlations with eight other traits measured, including average daily feed intake (ADFI), dry excreta weight (DEW), gross energy excretion (GEE), crude protein excretion (CPE), metabolizable dry matter (MDM), nitrogen corrected apparent metabolizable energy (AMEn), abdominal fat weight (AbF), and percentage of abdominal fat (AbP). Greater correlations were observed between growth traits and the feed conversion ratio (FCR) than RFI. In addition, the RFI, FCR, ADFI, DEW, GEE, CPE, MDM, AMEn, AbF, and AbP were lower in low-RFI birds than high-RFI birds (P < 0.01 or P < 0.05), whereas the coefficients of MDM and MCP of low-RFI birds were greater than those of high-RFI birds (P < 0.01). Five narrow QTLs for metabolizable efficiency traits were detected, including one 82.46-kb region for DEW and GEE on Gallus gallus chromosome (GGA) 26, one 120.13-kb region for MDM and AMEn on GGA1, one 691.25-kb region for the coefficients of MDM and AMEn on GGA5, one region for the coefficients of MDM and MCP on GGA2 (103.45–103.53 Mb), and one 690.50-kb region for the coefficient of MCP on GGA14. Linkage disequilibrium (LD) analysis indicated that the five regions contained high LD blocks, as well as the genes chromosome 26 C6orf106 homolog (C26H6orf106), LOC396098, SH3 and multiple ankyrin repeat domains 2 (SHANK2), ETS homologous factor (EHF), and histamine receptor H3-like (HRH3L), which are known to be involved in the regulation of neurodevelopment, cell proliferation and differentiation, and food intake.ConclusionsSelection for low RFI significantly decreased chicken feed intake, excreta output, and abdominal fat deposition, and increased nutrient digestibility without changing the weight gain. Five novel QTL regions involved in the control of metabolizable efficiency in chickens were identified. These results, combined through nutritional and genetic approaches, should facilitate novel insights into improving feed efficiency in poultry and other species.

Growth of beef cattle as prediction for meat production: A review

Growth of beef cattle as prediction for meat production: A review