Low Residual Feed Intake Research Articles

Transcriptome analysis of liver and ileum reveals potential regulation of long non-coding RNA in pigs with divergent feed efficiency.

LncRNA plays a significant role in regulating feed efficiency. This study aims to explore the key long non-coding RNAs, associated genes, and pathways in pigs with extreme feed efficiencies. We screened pigs with extremely high and low RFI through a 12-week animal growth trial and then conducted transcriptome analysis on their liver and ileum tissues. We analyzed the differential expressed lncRNAs, miRNAs, and mRNAs through target gene prediction and functional analysis. And we identified key lncRNAs and their potential regulatory genes associated with feed efficiency through the construction of competitive endogenous RNA network. Differentially expressed lncRNAs were pinpointed in the liver, revealing 23 crucial target genes primarily associated with GTP metabolism and glycolipid biosynthesis. In the ileum, a screening identified 92 pivotal target genes, mainly linked to lipid and small molecule metabolism. Moreover, LOC106504303 and LOC102160805 emerged as potentially significant lncRNAs respectively, playing roles in mitochondrial oxidative phosphorylation in the liver, and lipid and cholesterol metabolism in the ileum. The lncRNAs regulate energy metabolism and biosynthesis in the liver, and the digestive absorption capacity in the small intestine, affecting the feed efficiency of pigs.

Development and validation of a model for early prediction of residual feed intake in beef cattle using plasma biomarkers

Identification of plasma biomarkers for feed efficiency in growing beef cattle offers a promising opportunity for developing prediction models to improve precision feeding strategies. However, these models must accurately predict feed efficiency at early stages of fattening. Our study aimed to evaluate the reliability of candidate biomarkers previously identified in late-fattening cattle when analyzed during early fattening stages and to develop diet-specific prediction equations for residual feed intake (RFI). From a total of 364 Charolais bulls across 7 cohorts, we selected 64 animals with extreme RFI values. The animals were fed either a corn‑ or grass-silage diets. These animals were chosen from 4 out of available 7 cohorts. Animals from three cohorts (24 high-RFI and 24 low-RFI, having a mean RFI difference of 1.48 kg/d) were used for biomarker confirmation and prediction model training. Animals from a fourth cohort (8 high-RFI and 8 low-RFI, having a mean RFI difference of 0.98 kg/d) were used for model external validation. Blood samples were collected at the beginning of the feed efficiency test (333±20 days), and plasma underwent targeted metabolomic for 630 metabolites, natural abundance of 15N (δ15N), insulin, and IGF-1 analysis. Seven previously identified plasma biomarkers for RFI in late-fattening beef cattle still kept their capability for discriminating low and high RFI animals when analyzed during early fattening stages (P < 0.05). Among these confirmed biomarkers, five were common for both grass- and corn-fed animals (creatinine, β-alanine, triglyceride TG18:0_34:2, symmetric dimethyl-arginine and phosphatidylcholine PC aa C30:2) while two were diet-specific (insulin-like growth factor 1 for grass silage-based diet, and isoleucine for corn silage-based diet. No new plasma biomarkers of RFI were identified at early-fattening stages (false discovery rate, FDR>0.05). Prediction models were developed based on seven confirmed RFI biomarkers analyzed during early-fattening. Two logistic regression models incorporating creatinine and either IGF-1 (for grass silage-based diet) or PC aa C30:2 (for corn silage-based diet) effectively distinguished between high and low-RFI animals with high sensitivity and specificity (area under the curve, AUC > 0.80). The biomarkers used in the models showed moderate to high repeatability between early and late fattening stages (45 < r <65). The models were successfully externally validated, with more than 85% of animals from the fourth cohort correctly classified. Once validated in larger cohorts and utilizing cost-effective and rapid analytical methods, these models could support precision feeding and breeding programs, aiming to reduce the cost of raising beef cattle.

PSVI-18 Association between residual feed intake and reproductive-related traits in young bulls

Abstract Enhancement of feed efficiency (FE) along with reproductive performance is critical to maximize profitability of beef production systems. Residual feed intake (RFI) is a measure of FE, assessing differences between expected and actual feed intake. Published data suggest a negative impact of RFI on reproductive performance. The objective of this experiment was to establish the relationship between RFI and reproductive parameters related with puberty in young bulls. Growing, Brangus bulls (n = 58; 10 to 12 mo of age) were tested for FE over 56 d and ranked as low RFI (LRFI) and high RFI (HRFI). Scrotal circumference (SC) was measured at the greatest diameter of the testicles by the same operator using a scrotal measuring tape, and semen samples were collected by electroejaculation at the beginning and at the end of the test. Fresh semen was visually evaluated (VE) for visual motility (VM), morphology [major defects (MAD)], minor defects (MID), total defects (TD)], plasma membrane integrity (PMI) via Eosin-nigrosin stain and sperm concentration (Con). Sperm kinematics were objectively determined simultaneously via computer-assisted sperm analysis (CASA-IVOS II System, Hamilton Thorne, Beverly, MA) within 6 h of collection in a medium designed specifically for holding sperm. Statistical analysis included repeated measures to assess interactions between Group (LRFI, HRFI) and Time (0 and 56 d of RFI measurement). Results are presented as mean ± SEM in Table 1. The main effect of Group did not affect CASA derived traits, while MAD and TD were affected among VE traits. A Time effect was observed in the amplitude of lateral head displacement (ALH), beat cross frequency (BCF), curvilinear velocity (VCL) and linearity (LIN). A tendency was indicated for total motility (TM), and average path velocity (VAP) among CASA derived traits, while all VE traits were affected by Time except for visual motility (VM). Finally, an interaction effect (Group x Time) was observed in LIN and plasma membrane integrity (PMI). In conclusion, age at puberty as determined by VM, Con, and SC (Group: P = 0.12, Day: P &amp;lt; 0.001, Group x Day: P = 0.79) was not associated with RFI. Overall, fertility-related measurements were not influenced by RFI, with time emerging as the primary influencing factor across evaluated parameters. Evaluation of reproductive parameters following d 56 FE testing may be a useful determinant for identifying differences in seminal characteristics of young bulls.

188 Prediction of individual grazing beef cattle dry matter intake

Abstract Estimation of individual dry matter intake (DMI) of pastured beef cattle is critical to grassland management, genetic improvement of efficiency, and increasing the sustainability of animal agriculture. Currently, the only way to measure individual DMI of grazing cattle is through expensive, labor intensive, and spatially demanding research protocol. Very few options for assessment of individual DMI of grazing animals exist for cattle producers. We have developed a machine learning approach to predicting individual DMI of pastured beef cattle that requires only body weight (BW), water intake, and open-source climate variables. Training data were collected in Wardensville, WV at the West Virginia University Research, Outreach, and Education Center. Crossbred steers (n = 32) were phenotyped for Residual Feed Intake (RFI) in the barn. Animals were split into four groups of two low RFI and two high RFI. After a grazing acclimation period, animal groups were rotationally grazed concurrently through 0.05 ha plots for 7 d. Daily BW and water intake data were collected throughout the experiment using an RFID-equipped front-end scale and metered waterers. Beginning on d 2, animals were provided a bolus of Cr2O3 (10 g) at 0700 and 1900 h. Beginning on d 5, fecal samples were collected from each animal at 0700 and 1900 h. Samples were analyzed for Cr2O3 content and used in conjunction with forage digestibility from paired clipped samples to generate individual intakes. These data were used as ground truth data to assess model performance. We used our Repeated Measures Random Forest (RMRF) model to predict individual DMI of animals using daily BW, water intake, and climate variables. Intakes estimated by RMRF were compared with intakes estimated by NASEM equations. Our model outperformed NASEM predictions by 70%, indicating that our method achieves better results than the current most efficient approach. Though iterative model improvements will be made (collection of more training data, collection of more diverse training data, and use of first-differenced, moving average, and seasonally adjusted variables), our work demonstrates a novel, efficient method for researchers and producers to more accurately estimate DMI of individual pastured beef cattle.

Transcriptomic profiling reveals potential regulatory genes and molecular mechanisms of residual feed intake in Jian carp (Cyprinus carpio var. Jian)

Feed efficiency is one of the most important economic traits in animal production. Improving feed efficiency through genetic selection or other approaches will reduce production costs and mitigate environmental impacts. Residual feed intake (RFI) has some advantages over traditional feed efficiency metrics as a selection criterion for improving feed efficiency, because it is not a ratio and unrelated to growth. In this study, high RFI (HRFI) and low RFI (LRFI) Jian carp (Cyprinus carpio var. Jian) were tested for feed efficiency traits and serum biochemical indices. No significant differences were observed in the growth rates between HRFI and LRFI group, but daily feed intake of LRFI was significantly lower than that of the HRFI group. The results indicated that significantly higher content of triglyceride (TG) and total cholesterol (T-CHO) in the LRFI group was significantly correlated with RFI. We also selected HRFI and LRFI carp for transcriptomic analysis to determine differentially expressed genes (DEGs) in the liver tissues of 12 individuals. A total of 830 DEGs were identified between HRFI and LRFI group, of which 486 genes were up-regulated and 344 genes were down-regulated. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis revealed that DEGs were mainly enriched in fatty acid metabolism, ErbB signaling pathway, phosphatidylinositol signaling system, and autophagy. Lipid metabolism and autophagy-related genes, were considered candidate genes that played a crucial role in regulating feed efficiency. Taken together, these results indicated that differences in RFI affect Jian carp metabolism and cell fate, and that alterations in fatty acid metabolism and autophagy are key physiological modes of regulation in low RFI Jian carp. Our data provide valuable candidate genes and candidate pathways, which will help to study the molecular mechanisms of feed efficiency in carp.

Metabolomics Profiling of Serum and Urine from Chuanzang Black Pigs with Different Residual Feed Intake.

This study was conducted to evaluate associations of blood variables and urine variables with different residual feed intakes (RFIs) in growing Chuanzang black (CB) pigs. A total of 228 growing CB boars from 99 days were used. The same basal diet was offered ad libitum and individual feed intake and body weight were measured over a period of 181 d. The CB pigs were categorized based on their residual feed intake values, with six individuals each from the high and low ends selected and divided into two groups: the low residual feed intake group (LS) and the high residual feed intake group (HS). Serum and urine samples were collected at the end of the experiment for determination of metabolomics profiling. Results showed that there were significantly different metabolites in serum and urine of different RFI groups (fold-change, FC > 2.0 or FC < 0.5, and p < 0.05), and 21 metabolites were identified in serum and 61 in urine. Cluster analysis showed that 20 metabolites were up-regulated and one metabolite was down-regulated in serum; 44 metabolites were up-regulated and 17 metabolites were down-regulated in urine. Kyoto Encyclopedia of Genes and Genomes analysis showed that the differential metabolites of serum were enriched in linoleic acid metabolism, and the differential metabolites of urine were enriched in steroid hormone biosynthesis, taurine and hypotaurine metabolism, and primary bile acid biosynthesis. The correlations between serum metabolites and urine metabolites indicated a significant positive correlation between all fatty acyls in serum metabolites and L-glutamate in urine. However, no compelling genetic or blood biomarkers have been found to explain the differences in RFI, suggesting multiple approaches to effective feed use in pigs. This study provides new insights into the subsequent assessment of RFI by metabolomics profiling, as well as the development of novel feed additives for the factors that will facilitate future research directions in CB pigs.

Immune cells phenotype and bioenergetic measures in CD4+ T cells differ between high and low feed efficient dairy cows

Identifying sources of variance that contribute to residual feed intake (RFI) can aid in improving feed efficiency. The objectives of this study were to investigate immune cells phenotype and bioenergetic measures in CD4+ T cells in low feed efficient (LE) and high feed efficient (HE) dairy cows. Sixty-four Holstein cows were enrolled at 93 ± 22 days in milk (DIM) and monitored for 7 weeks to measure RFI. Cows with the highest RFI (LE; n = 14) or lowest RFI (HE; n = 14) were selected to determine immune cells phenotype using flow cytometry. Blood was sampled in the same LE and HE cows at 234 ± 22 DIM to isolate peripheral blood mononuclear cells, followed by magnetic separation of CD4+ T lymphocytes using bovine specific monoclonal antibodies. The metabolic function of isolated CD4+ T lymphocytes was evaluated under resting and activated states. An increased expression of CD62L+ cells within CD8+ T lymphocytes and CD21+ B lymphocytes was observed in HE cows compared to LE cows. CD4+ T lymphocytes of HE cows exhibited an increased mitochondrial and glycolytic activity in resting and activated states compared to LE cows. These data suggest that immune cells in HE cows exhibit an increased metabolic function, which might influence nutrient partitioning and utilization and serve as a source of variation in feed efficiency that warrants future investigation.

Integrated multi-omics reveals the relationship between growth performance, rumen microbes and metabolic status of Hu sheep with different residual feed intakes

Residual feed intake (RFI) is a metric that provides a more accurate measure of feed efficiency. The lower the RFI, the higher the feed efficiency. The changes in the host microbiome and metabolome contribute to the greater feed efficiency of low RFI (LRFI) animals. The aim of this study was to explore the differences in rumen microorganisms, rumen metabolites and plasma metabolites of Hu sheep with differing RFI through the microbiome and metabolome. A total of 80 Hu sheep were used. The experiment consisted of a 15-d pretrial period and a 128-d experimental period. The RFI in the experimental period was calculated for all sheep, and the sheep were screened into high RFI (HRFI, n = 8) and LRFI (n = 8) groups. The HRFI and LRFI sheep did not differ in their initial and final body weights, average daily gain and body measurements, but the dry matter intake of LRFI sheep was significantly decreased (28.4%, P < 0.001). The sheep with LRFI had higher digestibility of crude protein (P = 0.010) and ether extract (P = 0.010) compared to HRFI group. The concentrations of acetate (P = 0.036), propionate (P = 0.010), valerate (P = 0.027) and total volatile fatty acids (P = 0.048) in rumen of LRFI group were higher compared to HRFI group. The results of 16S rDNA sequencing indicated that the sheep with LRFI had higher proportions of Prevotella genus in rumen liquid (P = 0.031). The rumen metabolome and plasma metabolome results showed that the citrate cycle, pyruvate metabolism and alanine, aspartate and glutamate metabolism processes were more active for sheep in LRFI group, which provided more energy substrate such as malic acid, oxoglutaric acid and citric acid. In conclusion, sheep with LRFI can utilize feed more efficiently, and the more active energy metabolism pathway and the production of energy substances may account for the higher feed efficiency.

Performance, nutrient utilization and meat quality traits in Bos indicus cattle: a meta-analysis examining the effect of residual feed intake.

This meta-analysis aims to investigate the effects of residual feed intake (RFI) phenotype on performance, nutrient utilization and meat quality traits in Zebu (Bos indicus) cattle. Twenty-three peer-reviewed publications with 37 treatment means were included in the dataset. Weighted mean difference analysis compared animals categorized into low RFI (more efficient) versus medium or high RFI (less efficient) groups. Data heterogeneity via meta-regression and subgroup analysis, considering variables such as animal age, sex class, experimental duration, RFI group, dietary concentrate, and estimated metabolizable energy intake were also explored. The predominant genetic group of cattle in the dataset was Nellore (89.18%), followed by Brahman (10.81%). More efficient animals (low RFI phenotype) exhibited less dry matter intake (DMI; P < 0.010) than medium or high RFI animals (-0.95kg vs. -0.42kg/d). Cattle dietary crude protein and fiber digestibility were consistent across RFI groups (P > 0.05), while dietary ether extract digestibility tended to decrease (P = 0.050) in low RFI animals (-13.20g/kg DM). Low RFI animals tended to increased (P = 0.065) ribeye area (REA) compared to the high/medium RFI groups, while carcass backfat thickness (BFT) decreased (P = 0.042) compared to high/medium RFI groups. Moreover, there was an increase (P < 0.001) of 0.22kg in Warner-Bratzler shear force (WBSF) and a reduction (P < 0.001) in the myofibrillar fragmentation index (MFI) in low RFI animals. Meat color parameters (lightness [L*] and yellowness [b*]) and visual marbling scores were consistent (P > 0.05) across RFI groups. In conclusion, Zebu cattle classified as efficient (low RFI) exhibited reduced DMI, which improves their feed efficiency. However, BFT and meat quality parameters such as tenderness (WBSF and MFI) and redness [a*] were compromised by low RFI phenotype, highlighting the challenge of enhancing feed efficiency and meat quality traits in Zebu cattle.

Multi-omics unveils tryptophan metabolic pathway as a key pathway influencing residual feed intake in Duroc swine.

The genetic trait of residual feed intake (RFI) holds considerable importance in the swine industry. Recent research indicates that the gut microbiota of pigs plays a pivotal role in the manifestation of the RFI trait. Nevertheless, the metabolic pathways involved in the functioning of these microorganisms remain elusive. Thus, based on the ranking of the RFI trait in Duroc pigs, the present study selected the top 10 and bottom 10 pigs as the experimental subjects. The distribution and metabolite differences of cecal microbiota were analyzed using 16S rRNA gene sequencing and liquid chromatography-tandem mass spectrometry (LC-MS/MS) techniques. The low RFI cecal group was named LRC, and the high RFI cecal group was named HRC. The results indicate that the LRC group had lower RFI, feed conversion ratio (FCR), average daily feed intake (ADFI) (p < 0.001), and thinner backfat (p < 0.05) compared with the HRC group. We simultaneously recorded the foraging behavior as well, the LRC group had a significant increase in total time spent at the feeder per day (TPD) (p < 0.05) and a significant increase in average feed intake per mins (AFI) and the number of visits to the feeder per day (NVD) compared to the HRC group (p < 0.001). Clostridium_XVIII, Bulleidia, and Intestinimonas were significantly enriched in the LRC group (p < 0.01), while Sutterella, Fusobacterium, and Bacteroides were significantly increased in the HRC group (p < 0.01). In the metabolome, we detected 390 (248 metabolites up and 142 down in the LRC compared with HRC), and 200 (97 metabolites up and 103 down in the LRC compared with HRC) differential metabolites in positive and negative ionization modes. The comprehensive analysis found that in the LRC group, Escherichia and Eubacterium in the gut may increase serotonin content, respectively. Bacteroides may deplete serotonin. We suggest that the RFI may be partly achieved through tryptophan metabolism in gut microbes. In individuals with low RFI, gut microbes may enhance feed efficiency by enhancing host synthesis and metabolism of tryptophan-related metabolites.

Effects of residual feed intake on the economic traits of fast-growing meat ducks

Feed efficiency (FE) is a crucial economic indicator of meat duck production. The objective of this study was to assess the impact of residual feed intake (RFI), defined as the difference between the actual and expected feed intake based on animal's production and maintenance requirements, on the growth performance (GP), slaughter and internal organ characteristics of fast-growing meat ducks. In total, 1,300 healthy 14-day-old male fast-growing meat ducks were housed in individual cages until slaughter at the age of 35 d. The characteristics of the carcass and internal organs of 30 ducks with the highest RFI (HRFI) and the lowest RFI (LRFI) were respectively determined. RFI, the feed conversion ratio (FCR), and average day feed intake (ADFI) were significantly lower in the LRFI group than the HRFI group (P < 0.001), while there were no significant differences in marketing BW or BW gain (BWG) (P > 0.05). The thigh muscle and lean meat yields were higher, and the abdominal fat content was lower (P < 0.001) in the LRFI group, while there were no significant differences in other carcass traits between the groups (P > 0.05). The liver and gizzard yields were significantly higher (P < 0.001) in the LRFI group, while there were no significant differences (P > 0.05) in intestinal length between the groups. RFI was highly positively correlate with FCR and ADFI (P < 0.01), but negatively correlated the yields of thigh muscle, lean meat, liver, and gizzard, and positively correlated with abdominal fat content. These results indicate that selection for low RFI could improve the FE of fast-growing meat ducks without affecting the marketing BW and BWG, while increasing yields of thigh muscle and lean meat and reducing abdominal fat content. These findings offer useful insights into the biological processes that influence FE of fast-growing meat ducks.

Genes involved in the cholecystokinin receptor signaling map were differentially expressed in the jejunum of steers with variation in residual feed intake

The jejunum is a critical site for nutrient digestion and absorption, and variation in its ability to take up nutrients within the jejunum is likely to affect feed efficiency. The purpose of this study was to determine differences in gene expression in the jejunum of beef steers divergent for residual feed intake (RFI) in one cohort of steers (Year 1), and to validate those genes in animals from a second study (Year 2). Steers from Year 1 (n = 16) were selected for high and low RFI. Jejunum mucosal tissue was obtained for RNA-seq. Thirty-two genes were differentially expressed (PFDR≤0.15), and five were over-represented in pathways including inflammatory mediator, cholecystokinin receptor (CCKR) signaling, and p38 MAPK pathways. Several differentially expressed genes (ALOX12, ALPI, FABP6, FABP7, FLT1, GSTA2, MEF2B, PDK4, SPP1, and TTF2) have been previously associated with RFI in other studies. Real-time qPCR was used to validate nine differentially expressed genes in the Year 1 steers used for RNA-seq, and in the Year 2 validation cohort. Six genes were validated as differentially expressed (P < 0.1) using RT-qPCR in the Year 1 population. In the Year 2 population, five genes displayed the same direction of expression as the Year 1 population and 3 were differentially expressed (P < 0.1). The CCKR pathway is involved in digestion, appetite control, and regulation of body weight making it a compelling candidate for feed efficiency in cattle, and the validation of these genes in a second population of cattle is suggestive of a role in feed efficiency.

Metagenomic insights into the relationship between intestinal flora and residual feed intake of meat ducks

In this study, we sought to determine the effects of intestinal flora on the feed efficiency of meat ducks by evaluating the correlation between intestinal flora and residual feed intake. The F2 generation of Cherry Valley ducks × Runzhou Crested White ducks was used as the study subjects, and feed consumption being recorded from d 21 to 42. RFI was calculated based on growth performance, and 20 low RFI and 20 high RFI ducks were randomly selected to characterize the effect of RFI on growth performance. To analyze the intestinal flora affecting RFI, 16s rDNA sequencing was performed on the contents of 5 intestinal segments from the HR and LR groups, and macrogenomic sequencing was performed on the cecal contents. Feed intake, average daily feed intake, feed conversion ratio, and residual feed intake were lower in low RFI. Analysis of the intestinal flora revealed the cecum to be more highly enriched in the carbohydrate metabolism pathway and less enriched with potentially pathogenic taxa than the other assessed intestinal regions. Further analysis of the cecal microbiota identified nine significantly differentially enriched intestinal flora. In this study, we accordingly identified a basis for the mechanisms underlying the effects of the intestinal flora on meat duck feed efficiency.

Multi-omics revealed the mechanism of feed efficiency in sheep by the combined action of the host and rumen microbiota

This study was conducted to investigate potential regulatory mechanisms of feed efficiency (FE) in sheep by linking rumen microbiota with its host by the multi-omics analysis. One hundred and ninety-eight hybrid female sheep (initial body weight = 30.88 ± 4.57 kg; 4-month-old) were selected as candidate sheep. Each test sheep was fed in an individual pen for 60 days, and the residual feed intake (RFI) was calculated. The ten candidate sheep with the highest RFI were divided into the Low-FE group, and the ten with the lowest RFI were divided into the High-FE group, all selected for sample collection. The RFI, average daily gain and average daily feed intake were highly significantly different between the two experimental groups (P < 0.05). Compared with Low-FE group, the insulin-like growth factor-1 and very low-density lipoprotein in serum and the propionate in rumen significantly increased in High-FE group (P < 0.01), but the acetate:propionate ratio in rumen significantly decreased in High-FE group (P = 0.034). Metagenomics revealed Selenomonas ruminantium, Selenomonas sp. and Faecalibacterium prausnitzii were key bacteria, and increased abundance of the genes encoding the enzymes for cellulose degradation and production of propionate in High-FE group. The results of proteomics and section showed the rumen papilla length (P < 0.001) and expression of carbonic anhydrase and Na+/K+-ATPase were significantly higher in High-FE group (P < 0.05). On the other hand, the acetyl-CoA content significantly increased in the liver of High-FE group (P = 0.002). The relative expression levels of insulin-like growth factor-1 and apolipoprotein A4 genes were significantly up-regulated in the liver of High-FE group (P < 0.01), but relative expression level of monoacylglycerol O-acyltransferase 3 gene was significantly down-regulated (P = 0.037). These findings provide the mechanism by which the collaborative interaction between rumen microbiota fermentation and host uptake and metabolism of fermentation products impacts feed efficiency traits in sheep.

Integrated transcriptome and microbiome analyses of residual feed intake in ducks during high production period

Residual feed intake (RFI) is a crucial parameter for assessing the feeding efficiency of poultry. Minimizing RFI can enhance feed utilization and reduce costs. In this study, 315 healthy female ducks were individually housed in cages. Growth performance was monitored during the high laying period, from 290 to 325 days of age. The cecal transcriptome and microbiome of 12 ducks with high residual feed intake (RFI) and 12 with low residual feed intake (LRFI) were analyzed. Regarding growth performance, the LRFI group exhibited significantly lower RFI, feed conversion ratio (FCR), and feed intake (Fi) compared to the HRFI group (p < 0.01). However, there were no significant differences observed in body weight (BW), body weight gain (BWG), and egg mass (EML) between the groups (p > 0.05). Microbiome analysis demonstrated that RFI impacted gut microbial abundance, particularly affecting metabolism and disease-related microorganisms such as Romboutsia, Enterococcus, and Megamonas funiformis. Transcriptome analysis revealed that varying RFI changed the expression of genes related to glucose metabolism and lipid metabolism, including APOA1, G6PC1, PCK1, and PLIN1. The integrated analysis indicated that host genes were closely linked to the microbiota and primarily function in lipid metabolism, which may enhance feeding efficiency by influencing metabolism and maintaining gut homeostasis.

Ruminal Microbiome Differences in Angus Steers with Differing Feed Efficiencies during the Feedlot Finishing Phase.

The catabolic activity of the ruminal microbial community of cattle enables the conversion of low-quality feedstuffs into meat and milk. The rate at which this conversion occurs is termed feed efficiency, which is of crucial importance given that feed expenses account for up to 70% of the cost of animal production. The present study assessed the relationship between cattle feed efficiency and the composition of their ruminal microbial communities during the feedlot finishing period. Angus steers (n = 65) were fed a feedlot finishing diet for 82 days and their growth performance metrics were evaluated. These included the dry matter intake (DMI), average daily gain (ADG), and residual feed intake (RFI). Steers were rank-ordered based upon their RFI, and the five lowest RFI (most efficient) and five highest RFI (least efficient) steers were selected for evaluations. Ruminal fluid samples were collected on days 0 and 82 of the finishing period. Volatile fatty acids (VFA) were quantified, and microbial DNA was extracted and the 16S rRNA gene was sequenced. The results showed that the ADG was not different (p = 0.82) between efficiency groups during the 82-day feedlot period; however, the efficient steers had lower (p = 0.03) DMI and RFI (p = 0.003). Less-efficient (high RFI) steers developed higher (p = 0.01) ruminal Methanobrevibacter relative abundances (p = 0.01) and tended (p = 0.09) to have more Methanosphaera. In high-efficiency steers (low RFI), the relative abundances of Ruminococcaceae increased (p = 0.04) over the 82-day period. The molar proportions of VFA were not different between the two efficiency groups, but some changes in the concentration of specific VFA were observed over time. The results indicated that the ruminal microbial populations of the less-efficient steers contained a greater relative abundance of methanogens compared to the high-efficiency steers during the feedlot phase, likely resulting in more energetic waste in the form or methane and less dietary energy being harvested by the less-efficient animals.

119 Plasma metabolomics and feed behavior patterns in feed efficient or inefficient beef bulls

Abstract Residual feed intake (RFI) is a measure of feed efficiency (FE). Differences in plasma metabolites concentration found in animals with contrasting RFI are potential biomarkers of FE. Furthermore, feed behavior patterns could also be used to identify animals with contrasting RFI. We hypothesize that the integration of plasma metabolomics data and feed behavior can predict the future animal performance. We used 302 bulls subjected to an ad libitum diet for 56-d while allocated in pens equipped with GrowSafe System to evaluate RFI. Blood samples were collected for metabolomics analysis at the beginning (d 0) and at the end (d 56) of the trial. Feeding behavior metrics including feeding bout (FB), and eating time were estimated. Subsequently, the bulls were classified as low RFI (LRFI) and high RFI (HRFI). The performance test showed no differences between LRFI and HRFI animals in the initial body weight (LRFI: 408.62 ± 47.43 Kg; HRFI: 407.64 ± 60.22; P = 0.41), final body weight (LRFI: 510.33 ± 58.28; HRFI: 500.82 ± 72.23; P = 0.46), and average daily gain (LRFI: 1.67 ± 0.28; HRFI: 1.54 ± 0.36; P = 0.42). But the dry matter intake was less for LRFI (6.45 ± 1.78) in comparison with HRFI animals (8.81 ± 2.63; P &amp;lt; 0.001). Metabolomics analysis performed on the top and bottom 30 bulls based on RFI, reveled increased concentrations of 18 metabolites in LRFI bulls on d 0, and 12 different metabolites on d 56. Among these compounds, Cer(d18:1/23:0) level was statistically greater on both d 0 (LRFI: 0.233 ± 0.016 µM; HRFI: 0.187 ± 0.014 µM, P = 0.039) and d 56 (LRFI: 0.267 ± 0.016 µM; HRFI: 0.205 ± 0.013 µM, P = 0.02), emerging as a potential biomarker distinguished by the multivariate analysis, capable of discerning between LRFI and HRFI animals. On the other hand, FB (LRFI: 13 events/d; HRFI: 15 events/d; P = 0.019) and eating time LRFI: 119 min/d; HRFI: 153 min/d; P &amp;lt; 0.001) were different between the two groups. The more efficient animals (LRFI) were observed to visit the feed bunk less frequently and spend less time consuming feed compared with the less efficient animals (HRFI). In conclusion, further exploration of the metabolites’ pathways and their roles and recognition of feeding behavior patterns could provide valuable insights into the mechanisms contributing to FE.

7 Environmental sustainability of livestock systems in the southeastern U.S.: Opportunities and research gaps

Abstract According to the Environmental Protection Agency (EPA), enteric methane (CH4) was the second largest source of greenhouse gas emissions from agriculture in 2021 behind nitrous oxide emissions from soil management. Cattle production in the southeastern U.S. represent a significant source of enteric CH4. In 2021, 31.5% of all cattle derived enteric CH4 arose from the southeastern U.S., representing 43.3% of cow-calf, 27.4% of stocker, 23.1% of feedlot, and 12.1% of dairy derived enteric CH4, according to the EPA. Previous work has demonstrated that reducing CH4 emissions represents the most promising means to limit climate change in the short-term, due to the short atmospheric lifespan of CH4. As such, developing enteric CH4 mitigation strategies for southeastern cattle producers is imperative. Enteric CH4 mitigation strategies can be grouped into diet formulations (e.g., lipid additions; feeding more grains; protein source and inclusion), feed management (e.g., grain and forage processing; grazing management; forage species), rumen manipulations [e.g., feed additives (ionophores or inhibitors); secondary plant compounds (tannins, essential oils, saponins)], and breeding strategies (e.g., selecting for low CH4 emitters; selecting for low residual feed intake). Of these options, the direct CH4 inhibitors appear to be the most promising. The largest source of enteric CH4 from the southeastern U.S. is from cow-calf production, representing 71.6% of the total. Furthermore, a 13.6% reduction in enteric CH4 from the southeastern cow-calf herd would offset more emissions than a 100% reduction in the southeastern dairy, stocker, or feedlot sectors. Despite the large gains in emission reductions that could be achieved by focusing on enteric CH4 mitigation strategies from southeastern pastoral systems, there has been relatively little research efforts in this area. For example, there has yet to be any investigation into the mitigation potential of CH4 inhibitors when fed to grazing cattle. This is especially important, because the mitigation potential of inhibitors is likely much greater for grazing than for confined fed cattle. Additionally, there are limited and aging research into grazing management strategies effects on enteric CH4 emissions. There also exists a gap-in-knowledge of how common (e.g., supplementation) or changes in management (e.g., selecting for smaller mature cow sizes) practices could potentially influence enteric CH4 emissions. Future research is still needed to further develop enteric CH4 mitigation strategies, with efforts needed in grazing systems, especially for the southeastern U.S.

Animal growth models as a tool to estimate resilience indicators in Bos indicus and Bos taurus heifers: Selection effects and genetics parameters

The aim of the study is to analyze different growth models for the estimation of resilience indicators and to assess the impacts of selection for yearling weight and breed on the resilience capacity of Nelore, Guzerá and Caracu heifers. Weight records of females (n = 38,937) from birth to the measurement of weight adjusted to 550 days of age (W550) were used to fit growth curves. Next, three resilience indicators were calculated based on weight deviations (residuals): natural logarithm of residual variance (LnVar), lag-one autocorrelation (rauto), and skewness of deviations. The means of the resilience indicators were compared between Nelore selection lines (NeC: selected based on the mean of the contemporary groups for W550; NeS: selected based on the highest selection differential for W550; and NeT: selected based on an index considering highest selection differential for W550 and lower residual feed intake) and breeds (Nelore, Guzerá, and Caracu). Additionally, the heritabilities of the resilience indicators were estimated, as well as the genetic correlations between these indicators and productive traits using blupf90+ program. The results indicated that selection for yearling weight had an impact on the resilience capacity of the animals, with NeS and NeT heifers exhibiting greater weight variability (mean LnVar: 6.09 ± 0.02 and 6.12 ± 0.02, respectively) but also the highest recovery rate (rauto: 0.04 ± 0.01 and 0.04 ± 0.01, respectively). Nelore heifers were the most resilient, with a fast recovery rate (rauto: 0.01 ± 0.05) and there was little influence of the environment on performance (skewness: 0.00 ± 0.01). Caracu was the breed most affected by environmental disturbances (LnVar: 6.46 ± 0.02), with inverse subsequent weight deviations (rauto: -0.12 ± 0.05). The heritabilities of the resilience indicators were low and moderate, with the highest estimates being observed for LnVar in the three breeds (0.05 ± 0.05 to 0.38 ± 0.07). LnVar and skewness showed moderate positive genetic correlations with W550 (0.29 ± 0.18 to 0.55 ± 0.12), while the genetic correlations of rauto with W550 were weak and negative (-0.19 ± 0.17 to -0.28 ± 0.20). Selection for yearling weight influenced the resilience capability to environmental challenges in heifers during the growth phase. The results reinforce the greater adaptation capacity of zebuine breeds (Bos indicus) to tropical environments when compared to taurine breeds (Bos taurus). LnVar showed enough genetic variability to be included in breeding programs for zebu breeds aiming selection for more resilient animals.

Variability in residual feed intake, nutrient utilisation and blood parametersin Murrah buffalo calves fed on total mixed ration

The present study was conducted on 18 female Murrah buffalo calves divided into two treatment groups to determine the residual feed intake, nutrient digestibility and blood metabolite parameters when fed with ration containing wheat (Triticum aestivum) straw, berseem (Trifolium alexandrinum) fodder as roughages and concentrate mixture to meet their requirements. Regular recording of body weight and feed intake was done during 90-day trial period. Residual feed intake (RFI) values were determined for individual animals based on which they were divided into low and high RFI groups. DM intake was lower in low RFI animals than high RFI animals. The blood glucose level and growth hormone level in low and high RFI group was comparable in both groups. Low RFI group had greater concentration of creatinine (1.62 vs. 1.21 mg/dL) as well as IGF-1 (136.70 vs. 120.38 ng/mL) whereas, concentration of total plasma protein level (6.80 vs 7.43 g/dL), albumin (3.46 vs 3.71 g/dl), aspartate aminotransferase (102.20 vs. 122.60 IU/L) and cortisol (3.48 vs. 5.32 ng/mL) were lesser in low RFI group with respect to high RFI group, indicating a positive correlation of RFI with total plasma protein, albumin, aspartate aminotransferase and cortisol and a negative correlation with plasma creatinine and IGF-1 levels in female Murrah buffalo calves. It was concluded that low RFI group of female Murrah buffalo calves showed better performance when fed with total mixed ration.