Compilations and updates on residual feed intake in sheep

The increasing global demand for food and the strong effect of climate change have forced animal science to advance regarding new methods of selection in search of more efficient animals in production systems. Feed consumption represents more than 70% of the costs of sheep farms, and more efficient animals can increase the farmers' profitability. One of the main measures of feed efficiency is estimated residual feed intake (RFI), created in 1963 by Robert Koch for estimation in cattle and later adapted for sheep. Animals with negative RFI values (RFI-) are more efficient than animals with positive values (RFI+), with influence on the variables of performance, carcass quality and production of enteric gases. The RFI is the most common and accepted metric of the feed efficiency trait for genetic selection, since it is independent of growth traits, unlike the feed conversion ratio. The purpose of this review article was to present updated literature information on the relationship of RFI estimates with performance measures, molecular markers, greenhouse gas production and feed efficiency, the technical aspects and physiological basis of metabolic in sheep.

Characterization of rumen microbiome and immune genes expression of crossbred beef steers with divergent residual feed intake phenotypes

We investigated whole blood and hepatic mRNA expressions of immune genes and rumen microbiome of crossbred beef steers with divergent residual feed intake phenotype to identify relevant biological processes underpinning feed efficiency in beef cattle. Low-RFI beef steers (n = 20; RFI = - 1.83 kg/d) and high-RFI beef steers (n = 20; RFI = + 2.12 kg/d) were identified from a group of 108 growing crossbred beef steers (average BW = 282 ± 30.4 kg) fed a high-forage total mixed ration after a 70-d performance testing period. At the end of the 70-d testing period, liver biopsies and blood samples were collected for total RNA extraction and cDNA synthesis. Rumen fluid samples were also collected for analysis of the rumen microbial community. The mRNA expression of 84 genes related to innate and adaptive immunity was analyzed using pathway-focused PCR-based arrays. Differentially expressed genes were determined using P-value ≤ 0.05 and fold change (FC) ≥ 1.5 (in whole blood) or ≥ 2.0 (in the liver). Gene ontology analysis of the differentially expressed genes revealed that pathways related to pattern recognition receptor activity, positive regulation of phagocytosis, positive regulation of vitamin metabolic process, vascular endothelial growth factor production, positive regulation of epithelial tube formation and T-helper cell differentiation were significantly enriched (FDR < 0.05) in low-RFI steers. In the rumen, the relative abundance of PeH15, Arthrobacter, Moryella, Weissella, and Muribaculaceae was enriched in low-RFI steers, while Methanobrevibacter, Bacteroidales_BS11_gut_group, Bacteroides and Clostridium_sensu_stricto_1 were reduced. In conclusion, our study found that low-RFI beef steers exhibit increased mRNA expression of genes related to immune cell functions in whole blood and liver tissues, specifically those involved in pathogen recognition and phagocytosis regulation. Additionally, these low-RFI steers showed differences in the relative abundance of some microbial taxa which may partially account for their improved feed efficiency compared to high-RFI steers.

Performance, feed efficiency, feeding behavior, and cortisol concentration of lambs ranked for Residual Feed Intake and Residual Intake and Gain

This study aimed to evaluate the performance, feed efficiency, feeding behavior, and cortisol concentrations of lambs ranked into different groups of Residual Feed Intake (RFI) and Residual Intake and Gain (RIG). Forty Santa Inês lambs with a mean initial age of 120 ± 30 days and mean initial (IBW) and final body weight (FBW) of 28.9 ± 3.2 and 43.7 ± 3.9 kg, respectively, were used. The animals were fed at an automatic feed and water station (Intergado®) for 60 days and classified at the end of the experiment as low-RFI/RIG, medium-RFI/RIG, and high-RFI/RIG according to RFI and RIG. Performance, feed efficiency measures, ingestive behavior, temperament, and cortisol concentrations were measured, and Pearson's correlation analysis was performed to evaluate the relationship between the variables studied. The variables that differed most between RFI groups were dry matter intake, feed conversion, and feed efficiency, with better values in efficient animals (RFI-). Regarding the RGI groups, the average daily gain of animals classified as RIG- was 19.37% lower than that of animals classified as RIG± and 39.28% lower than that of animals classified as RIG+. Only the hourly feeding rate per day (p = 0.04) differed significantly between RFI and RIG classes, while no differences were observed for the ingestive behavior variables or cortisol. The number of visits to the feed bunk (total, with or without intake) showed no correlation with any performance or efficiency measure. Identifying animals ranked into different RFI and RIG classes shows that more efficient animals have a lower feed intake for the same weight gain and spend less time at the feed bunk.

Interaction between residual feed intake and thermal environment on performance, nitrogen balance, ingestive behavior and carcass yield of dorper lambs

Residual feed intake (RFI) is a nutritional variable used in genetic improvement programs, the relationship between the environment and the availability of energy and protein in the diet has not yet been explored. Thus, the aim was to evaluate interactions between RFI and thermal environment on performance, nitrogen balance, ingestive behavior and carcass yield of Dorper lambs receiving diets containing different concentrate levels. Dorper lambs (male, n = 64, 17.83 ± 2.43 kg and 110 ± 10 days of age) were confined individually for 40 days for RFI classification. Lambs were separated into positive RFI (n = 30) and negative RFI (n = 30) and remained confined for another 60 days. The animals were distributed in a randomized block design, with a 2 × 2 × 3 factorial scheme, with 2 confinement environments (full sun or shade), 2 groups of feed efficiency (RFI positive or RFI negative) and three diets containing different concentrate levels (30, 45 and 60%), with 5 replications in each treatment. Isolated effects of concentrate level were observed for dry matter intake and digestibility, feeding, rumination, idle and chewing times, feeding efficiency, ingested, excreted and absorbed nitrogen, and on cooling losses, hot and cold carcass yield (P < 0.05). There was an effect of environment × concentrate interaction on performance, retained nitrogen and nitrogen balance (P < 0.05). There was an effect of RFI × environment interaction on the dry matter rumination efficiency, hot and cold carcass weight (P < 0.05). Under experimental conditions, RFI did not influence the productive performance of Dorper lambs. Interactions between environment and diet indicate better performance for Dorper lamb confined in the shade and receiving a higher proportion of concentrate. Animals with negative RFI show better performance and carcass weight when confined in shade, while animals with positive RFI showed better responses to these variables when confined in full sun.

Histological and physical-mechanical characteristics of the skin of Dorper sheep related to residual feed intake and the confinement environment

The aim was to evaluate the effect of residual feed intake (RFI) on the histological, physical and mechanical characteristics of the sheep skin confined in full sun or shade. Dorper sheep (n = 64), male, with an initial bodyweight of 17.8 ± 2.43 kg was confined for 40 days to determine the RFI. After classification, 30 animals with positive RFI and 30 animals with negative RFI were selected, which were distributed in 2 confinement environments. This was a factorial arrangement of 2 (groups of animals-positive RFI and negative RFI) × 2 (environments-full sun and shade), with 15 animals for each combination of factors. The sheep remained in confinement for 60 days. After slaughter, skins were divided in half, and fragments were collected from the right portion for histological sections. The left part of each skin was subjected to tanning. Interaction effect RFI × environment was found in the evaluation of leather fragments in the horizontal direction on elongation at break, leather thickness and tear strength (p < 0.05). An isolated effect of the environment was found on elongation at break of leather fragments in the evaluation on the vertical direction (p = 0.01) and on the number of secondary follicles during the histological evaluation of the dorsal and lateral regions of the skin (p < 0.05). An effect of the interaction RFI × environment was observed for the thermostatic layer of the hip region (p = 0.03). Sheep with positive RFI and kept in confinement in full sun have a leather with greater elongation at break and tear strength, important aspects in determining the quality of the product by the leather industry.

Genetic parameters for residual feed intake, methane emissions, and body composition in New Zealand maternal sheep

There is simultaneous interest in improving the feed efficiency of ruminant livestock and reducing methane (CH₄) emissions. The relationship (genetic and phenotypic) between feed efficiency (characterized as residual feed intake: RFI) and greenhouse gases [methane (CH₄) and carbon dioxide (CO₂)] traits in New Zealand (NZ) maternal sheep has not previously been investigated, nor has their relationship with detailed estimates of body composition. To investigate these relationships in NZ maternal sheep, a feed intake facility was established at AgResearch Invermay, Mosgiel, NZ in 2015, comprising automated feeders that record individual feeding events. Individual measures of feed intake, feeding behavior (length and duration of eating events), and gas emissions (estimated using portable accumulation chambers) were generated on 986 growing maternal ewe lambs sourced from three pedigree recorded flocks registered in the Sheep Improvement Limited database (www.sil.co.nz). Additional data were generated from a subset of 591 animals for body composition (estimated using ultrasound and computed tomography scanning). The heritability estimates for RFI, CH₄, and CH₄/(CH₄+CO₂) were 0.42 ± 0.09, 0.32 ± 0.08, and 0.29 ± 0.06, respectively. The heritability estimates for the body composition traits were high for carcass lean and fat traits; for example, the heritability for visceral fat (adjusted for body weight) was 0.93 ± 0.19. The relationship between RFI and CH₄ emissions was complex, and although less feed eaten will lead to a lowered absolute amount of CH₄ emitted, there was a negative phenotypic and genetic correlation between RFI and CH₄/(CH₄+CO₂) _of −0.13 ± 0.03 and −0.41 ± 0.15, respectively. There were also genetic correlations, that were different from zero, between both RFI and CH₄ traits with body composition including a negative correlation between the proportion of visceral fat in the body and RFI (−0.52 ± 0.16) and a positive correlation between the proportion of lean in the body and CH₄ (0.54 ± 0.12). Together the results provide the first accurate estimates of the genetic correlations between RFI, CH₄ emissions, and the body composition (lean and fat) in sheep. These correlations will need to be accounted for in genetic improvement programs.

Eating Time as a Genetic Indicator of Methane Emissions and Feed Efficiency in Australian Maternal Composite Sheep

Previous studies have shown reduced enteric methane emissions (ME) and residual feed intake (RFI) through the application of genomic selection in ruminants. The objective of this study was to evaluate feeding behaviour traits as genetic indicators for ME and RFI in Australian Maternal Composite ewes using data from an automated feed intake facility. The feeding behaviour traits evaluated were the amount of time spent eating per day (eating time; ETD; min/day) and per visit (eating time per event; ETE; min/event), daily number of events (DNE), event feed intake (EFI; g/event) and eating rate (ER; g/min). Genotypes and phenotypes of 445 ewes at three different ages (post-weaning, hogget, and adult) were used to estimate the heritability of ME, RFI, and the feeding behaviour traits using univariate genomic best linear unbiased prediction models. Multivariate models were used to estimate the correlations between these traits and within each trait at different ages. The response to selection was evaluated for ME and RFI with direct selection models and indirect models with ETE as an indicator trait, as this behaviour trait was a promising indicator based on heritability and genetic correlations. Heritabilities were between 0.12 and 0.18 for ME and RFI, and between 0.29 and 0.47 for the eating behaviour traits. In our data, selecting for more efficient animals (low RFI) would lead to higher methane emissions per day and per kg of dry matter intake. Selecting for more ETE also improves feed efficiency but results in more methane per day and per kg dry matter intake. Based on our results, ETE could be evaluated as an indicator trait for ME and RFI under an index approach that allows simultaneous selection for improvement in emissions and feed efficiency. Selecting for ETE may have a tremendous impact on the industry, as it may be easier and cheaper to obtain than feed intake and ME data. As the data were collected using individual feeding units, the findings on this research should be validated under grazing conditions.

Evaluation of the Links between Lamb Feed Efficiency and Rumen and Plasma Metabolomic Data

Feed efficiency is one of the keystones that could help make animal production less costly and more environmentally friendly. Residual feed intake (RFI) is a widely used criterion to measure feed efficiency by regressing intake on the main energy sinks. We investigated rumen and plasma metabolomic data on Romane male lambs that had been genetically selected for either feed efficiency (line rfi−) or inefficiency (line rfi+). These investigations were conducted both during the growth phase under a 100% concentrate diet and later on under a mixed diet to identify differential metabolite expression and to link it to biological phenomena that could explain differences in feed efficiency. Nuclear magnetic resonance (NMR) data were analyzed using partial least squares discriminant analysis (PLS-DA), and correlations between metabolites’ relative concentrations were estimated to identify relationships between them. High levels of plasma citrate and malate were associated with genetically efficient animals, while high levels of amino acids such as L-threonine, L-serine, and L-leucine as well as beta-hydroxyisovalerate were associated with genetically inefficient animals under both diets. The two divergent lines could not be discriminated using rumen metabolites. Based on phenotypic residual feed intake (RFI), efficient and inefficient animals were discriminated using plasma metabolites determined under a 100% concentrate diet, but no discrimination was observed with plasma metabolites under a mixed diet or with rumen metabolites regardless of diet. Plasma amino acids, citrate, and malate were the most discriminant metabolites, suggesting that protein turnover and the mitochondrial production of energy could be the main phenomena that differ between efficient and inefficient Romane lambs.

Automated feeding of sheep. 2. Feeding behaviour influences the methane emissions of sheep offered restricted diets

Context During the non-growing season of pastures and during droughts, the dry-matter intake (DMI) of sheep is often constrained due to low pasture availability and the need to feed for weight loss or maintenance. Below-maintenance feeding may have consequences for methane (CH4) production and yield in farm systems. Aims The effect of six restricted feeding levels on CH4 emissions measured using portable accumulation chambers (PACs) was examined in relation to DMI, oxygen consumption (O2) and carbon dioxide (CO2) emissions and observed changes in feeding behaviour in sheep fed with automated feeders. Methods An automated feeding system was used to apply daily feeding levels to Maternal Composite ewes (n=126). Sheep were adapted to the automated feeding system over 19days, with unlimited access to feed. Following adaptation, sheep were allocated to restricted daily feed levels at 40%, 80%, 100%, 140% and 180% of estimated maintenance requirements (MR) for 41days. Methane, CO2 and O2 emissions from ewes were measured using PACs on Days 30 and 31 of the restricted feeding period. Key results Methane production (g/day) increased (P&lt;0.001) with the level of feeding. However, time since the last meal decreased with the level of feeding and was associated with CH4 production. Sheep on lower levels of feeding tended to consume meals earlier in the day and had longer times since their last meal at PAC measurement and lower CH4 production. These two factors explained 58.7% of the variance in CH4 production in an additive linear model. Methane yield (gCH4/kg DMI) decreased as the level of feeding was increased. Conclusions Methane emissions were affected not only by daily DMI, but also time since the last meal. An understanding of the effect of feeding behaviour and time since the last meal should be incorporated into feeding protocols prior to CH4 measurements when PACs are being used to measure CH4 emissions from sheep fed restricted diets. Implications Utilising automated feeders may improve the accuracy of PAC measurements of sheep CH4 emissions fed both ad libitum and restricted feed amounts, by increasing understanding of DMI and feeding behaviour.

Automated feeding of sheep. 1. Changes in feeding behaviour in response to restricted and ad libitum feeding

Context Automated feeding units allow the recording of individual feeding behaviour of group-housed sheep and provide data for research into feed efficiency. Aim It was hypothesised that measures of feeding behaviour such as the number of non-feeding events, meal size, eating rate and meal duration would change under different levels of feeding. Method Maternal Composite ewes (n = 126, 18 per pen) were fed a hay-based pellet using automated feeding units (2 per pen) for four periods differing in total daily feed allowance (kg/day) and meal allowance (g/meal). Sheep were initially fed ad libitum (meal allowance ~1000 g) for 19 days during an adaptation period, before restricted feeding for 41 days at daily allowances of 40%, 60%, 80%, 100%, 140% and 180% of estimated maintenance requirements, with a meal allowance of ~100 g. These restricted daily allowances were the experimental treatments that were randomly applied to sheep and replicated three times per pen. The daily allowance was then adjusted to 1.4 kg/day (with a ~200 g meal allowance) for all sheep over 5 days, before ad libitum feeding of all sheep for a period of 16 days. All feeding and non-feeding events were recorded. Key results Under restricted feeding, sheep altered the timing of their meals to consume more meals during the early morning after daily allowances were reset at 0000 hours. This change was more pronounced for sheep fed a smaller proportion of maintenance. The number of non-feeding events (~8/day) was not affected by the level of restricted feeding, but meal size was smaller, meal duration was longer and eating rate was lower for sheep fed 40% of their maintenance requirement. Under ad libitum feeding, sheep reverted to a preferred meal size and number of meals, with fewer than two non-feeding events per day, but differences in eating rate remained. Conclusions Sheep feeding behaviours adapt and respond quickly to changes in daily allowance and offered meal size, but the similar number of non-feeding events at different proportions of maintenance feeding suggest that non-feeding events may not reflect levels of hunger. Implications Our observations suggest that sheep are capable of learning and adapting to different levels of feeding and that this may allow for automated feeding systems to supplementary feed larger numbers of sheep under extensive situations.

Candidate serum metabolite biomarkers of residual feed intake and carcass merit in sheep

Mutton and lamb sales continue to grow globally at a rate of 5% per year. However, sheep farming struggles with low profit margins due to high feed costs and modest carcass yields. Selecting those sheep expected to convert feed efficiently and have high carcass merit, as early as possible in their life cycle, could significantly improve the profitability of sheep farming. Unfortunately, direct measurement of feed conversion efficiency (via residual feed intake [RFI]) and carcass merit is a labor-intensive and expensive procedure. Thus, indirect, marker-assisted evaluation of these traits has been explored as a means of reducing the cost of its direct measurement. One promising and potentially inexpensive route to discover biomarkers of RFI and/or carcass merit is metabolomics. Using quantitative metabolomics, we profiled the blood serum metabolome (i.e., the sum of all measurable metabolites) associated with sheep RFI and carcass merit and identified candidate biomarkers of these traits. The study included 165 crossbred ram-lambs that underwent direct measurement of feed consumption to determine their RFI classification (i.e., low vs. high) using the GrowSafe System over a period 40 d. Carcass merit was evaluated after slaughter using standardized methods. Prior to being sent to slaughter, one blood sample was drawn from each animal, and serum prepared and frozen at -80 °C to limit metabolite degradation. A subset of the serum samples was selected based on divergent RFI and carcass quality for further metabolomic analyses. The analyses were conducted using three analytical methods (nuclear magnetic resonance spectroscopy, liquid chromatography mass spectrometry, and inductively coupled mass spectrometry), which permitted the identification and quantification of 161 unique metabolites. Biomarker analyses identified three significant (P < 0.05) candidate biomarkers of sheep RFI (AUC = 0.80), seven candidate biomarkers of carcass yield grade (AUC = 0.77), and one candidate biomarker of carcass muscle-to-bone ratio (AUC = 0.74). The identified biomarkers appear to have roles in regulating energy metabolism and protein synthesis. These results suggest that serum metabolites could be used to categorize and predict sheep for their RFI and carcass merit. Further validation using a larger (3×) and more diverse cohort of sheep is required to confirm these findings.

Technical note: validation of an automated feeding system for measuring individual animal feed intake in sheep housed in groups

The development of feeding systems that can individually measure and control feed intake in a group-housed environment would allow a greater understanding of sheep intake without compromising animal welfare and behavior through the removal of social interactions between sheep. This study validated an automated feeding system for measuring feed intake of individual sheep when housed in groups. Validation of the feeding system was conducted during three separate experiments. The validation sampling involved the activation of four individual “feed events,” whereby four separate samples weighing approximately 50, 100, 200, and 400 g were removed from each feeder, with each feed event being linked to a specific radio frequency identification (RFID) tag. The feeder validation experiments evaluated the ability of the feeding system to 1) create a unique feed event every time a sample of pellets was collected from the feeder, 2) link the feed event to the correct RFID, and 3) accurately record the weight of feed that was manually removed. All feed events were initiated and logged in the feeding system with 100% of the events being linked to the correct test RFID. Concordance correlation coefficients between the feeding system-recorded feed weight and the manually removed weight were 0.99 within all three experiments. There was also no overall and little level-dependent bias between the weights measured by the feeding system and weights measured on the external scales. These results indicate the stability of the feeding system over time and consistency between the feeders within and across the three experiments. In conclusion, the automated feeding system developed for measuring individual animal feed intake was able to detect and record the unique electronic RFID associated with unique feed events and accurately capture the weight of feed removed. Furthermore, there was no change in the accuracy of the system from the start to the end of experimental periods, and the amount of feed removed in the feed event (or meal size) did not impact the accuracy of the results.

Detailed genetic analysis of feeding behaviour in Romane lambs and links with residual feed intake

Breeding strategies based on feed efficiency are now implemented in most animal species using residual feed intake (RFI) criteria. Although relevant, the correlated responses of feeding behaviour traits resulting from such selection on RFI are poorly documented. We report the estimated feeding behaviour at three time levels (visit, meal and day) and genetic parameters between the feeding behaviour traits and their links with RFI and its components. Feed intake, feeding duration at three time levels (per visit, meal and day), feeding rate, number of visits and time-between-visits were estimated for 951 Romane lambs fed via automatic concentrate feeders. Heritability estimates of feeding behaviour traits ranged from 0.19 to 0.54 with higher estimates for the day level than the visit level. Daily feed intake was not genetically linked to feed intake at the visit level, whereas feeding duration between visit and day levels was moderately correlated (R_g  = +0.41 ± 0.12). RFI was not significantly correlated with feeding rate, but was positively linked to feed intake and feeding duration at the day level (+0.73 ± 0.09 and +0.41 ± 0.13, respectively) and negatively at the visit level (-0.33 ± 0.14 and -0.22 ± 0.17, respectively). Selecting animals with lower RFI values might modify their feeding behaviour by increasing feed intake and feeding duration at the visit level but decrease the number of visits per day (+0.51 ± 0.14).