Carcass Composition Traits Research Articles

A review of porcine skeletal muscle plasticity and implications for genetic improvement of carcass and meat quality*

Skeletal muscle is characterized by a remarkable plasticity to adapt to stimuli such as contractile activity, loading conditions, substrate supply or environmental factors. The existing knowledge of muscle plasticity along with developed genetic and genomic technologies, have enabled creating animal breeding strategies and allowed for implementing agriculturally successful porcine genetic improvement programs. The primary focus of this review paper is on pig skeletal muscle plasticity as it relates to genetic improvement of desirable carcass composition and pork quality traits. Biological constraints between practically realized breeding objectives, pig skeletal muscle biology, and pork quality are also discussed. Future applications of genetic and genomic technologies and plausible focus on new breeding objectives enhancing pork production sustainability are proposed as well.

PSLBI-21 Interactive effects of dietary betaine supplementation and soybean hulls inclusion on growth performance and carcass composition of young growing pigs

Abstract Growing barrow pigs [n = 24; Large White x Landrace x Duroc; 29.51 ± 3.24 kg initial body weight (BW)] were assigned to 4 treatments in a 2 x 2 factorial design to evaluate the synergistic effects of dietary levels of betaine (BET; 0 and 0.1%) and soybean hulls (SBH; 0 and 15%) on growth performance and carcass composition. Pigs were blocked by initial BW and housed in individual pens with ad libitum access to feed and water for a 28-d feeding period. Pigs were weighed and feed intake was recorded at 14-d intervals. Real-time ultrasonic (RTU) measurements of the 10th-rib longissimus dorsi muscle area (LMA) and off-midline backfat thickness (BF) were obtained initially and on d 28 for all pigs. Prediction equations were used to estimate total fat tissue (TOFAT) and fat-free total lean (FFTOLN) from the measurements. All data were analyzed using the MIXED procedure of the SAS software. Growth performance data were analyzed as repeated measures on time and carcass data were analyzed as single measures with the respective baseline values used as covariate in the statistical model. There were no SBH x BET interactions for growth response variables. Pig growth was not affected by dietary BET supplementation. During the first 14 d of the study, pigs fed 15% SBH had decreased average daily gain (ADG; P = 0.01), average daily feed intake (ADFI; P = 0.02), and feed efficiency [gain:fee; (G:F;P = 0.04)] when compared with pigs fed diets without SBH. From d 15 to 28, dietary addition of 15% SBH reduced ADFI (P = 0.01), whereas no significant effects on the other growth performance variables were observed. Overall, when compared with pigs fed diets without SBH, pigs fed diets with 15% SBH had reduced feed intake (P = 0.01) and ADG (P = 0.04), which resulted in lighter pigs (P = 0.03) at the completion of the feeding trial. A SBH x BET interaction (P = 0.04) was observed for LMA, with decreased values (P < 0.05) detected for BET-supplemented pigs only when SBH was not included in the diet. No additional carcass composition traits were altered by BET supplementation. Including 15% SBH to the diet decreased BF (P = 0.05) and TOFAT (P = 0.04) in growing pigs. Neither BET supplementation nor SBH inclusion affected FFTOLN. In conclusion, adding supplemental BET to diets with SBH did not synergistically alter nutrient partitioning of young growing pigs. Although no beneficial effects of BET supplementation on growth and carcass composition traits were observed, feeding pigs diets containing 15% SBH resulted in slower growth rates with less fat deposition.

Identification of eQTLs using different sets of single nucleotide polymorphisms associated with carcass and body composition traits in pigs

BackgroundMapping expression quantitative trait loci (eQTLs) in skeletal muscle tissue in pigs is crucial for understanding the relationship between genetic variation and phenotypic expression of carcass traits in meat animals. Therefore, the primary objective of this study was to evaluate the impact of different sets of single nucleotide polymorphisms (SNP), including scenarios removing SNPs pruned for linkage disequilibrium (LD) and SNPs derived from SNP chip arrays and RNA-seq data from liver, brain, and skeletal muscle tissues, on the identification of eQTLs in the Longissimus lumborum tissue, associated with carcass and body composition traits in Large White pigs. The SNPs identified from muscle mRNA were combined with SNPs identified in the brain and liver tissue transcriptomes, as well as SNPs from the GGP Porcine 50 K SNP chip array. Cis- and trans-eQTLs were identified based on the skeletal muscle gene expression level, followed by functional genomic analyses and statistical associations with carcass and body composition traits in Large White pigs.ResultsThe number of cis- and trans-eQTLs identified across different sets of SNPs (scenarios) ranged from 261 to 2,539 and from 29 to 13,721, respectively. Furthermore, 6,180 genes were modulated by eQTLs in at least one of the scenarios evaluated. The eQTLs identified were not significantly associated with carcass and body composition traits but were significantly enriched for many traits in the “Meat and Carcass” type QTL. The scenarios with the highest number of cis- (n = 304) and trans- (n = 5,993) modulated genes were the unpruned and LD-pruned SNP set scenarios identified from the muscle transcriptome. These genes include 84 transcription factor coding genes.ConclusionsAfter LD pruning, the set of SNPs identified based on the transcriptome of the skeletal muscle tissue of pigs resulted in the highest number of genes modulated by eQTLs. Most eQTLs are of the trans type and are associated with genes influencing complex traits in pigs, such as transcription factors and enhancers. Furthermore, the incorporation of SNPs from other genomic regions to the set of SNPs identified in the porcine skeletal muscle transcriptome contributed to the identification of eQTLs that had not been identified based on the porcine skeletal muscle transcriptome alone.

A novel candidate gene CLN8 regulates fat deposition in avian

BackgroundThe fat deposition has a crucial role in animal meat flavor, and fat deposition-related traits are vital for breeding in the commercial duck industry. Avian fat-related traits are typical complex phenotypes, which need a large amount of data to analyze the genetic loci.ResultsIn this study, we performed a new phenotypic analysis of fat traits and genotyped whole-genome variations for 1,246 ducks, and combed with previous GWAS data to reach 1,880 ducks for following analysis. The carcass composition traits, subcutaneous fat weight (SFW), subcutaneous fat percentage (SFP), abdominal fat weight (AFW), abdominal fat percentage (AFP) and the body weight of day 42 (BW42) for each duck were collected. We identified a set of new loci that affect the traits related to fat deposition in avian. Among these loci, ceroid-lipofuscinosis, neuronal 8 (CLN8) is a novel candidate gene controlling fat deposition. We investigated its novel function and regulation in avian adipogenesis. Five significant SNPs (the most significant SNP, P-value = 21.37E−12) and a single haplotype were detected in the upstream of CLN8 for subcutaneous fat percentage. Subsequently, luciferase assay demonstrated that 5 linked SNPs in the upstream of the CLN8 gene significantly decreased the transcriptional activity of CLN8. Further, ATAC-seq analysis showed that transcription factor binding sites were identified in a region close to the haplotype. A set of luciferase reporter gene vectors that contained different deletion fragments of the CLN8 promoter were constructed, and the core promoter area of CLN8 was finally identified in the −1,884/−1,207 bp region of the 5′ flanking sequences, which contains adipogenesis-related transcription factors binding sites. Moreover, the over-expression of CLN8 can remarkably facilitate adipocyte differentiation in ICPs. Consistent with these, the global transcriptome profiling and functional analysis of the over-expressed CLN8 in the cell line further revealed that the lipid biosynthetic process during the adipogenesis was significantly enriched.ConclusionsOur results demonstrated that CLN8 is a positive regulator of avian adipocyte differentiation. These findings identify a novel function of CLN8 in adipocyte differentiation, which provides important clues for the further study of the mechanism of avian fat deposition.

Prevalence of carcass lesions and their effects on welfare, carcass composition and meat quality in slaughtered pigs

Abstract The aims of this study were to determine the prevalence of carcass lesions in slaughtered pigs and to quantify their relationships with different animal characteristics, pre-slaughter factors, blood measurements, performance indices, carcass composition and meat quality traits. Data was recorded for 30 journeys referring to 1080 market-weight pigs that originated from 15 commercial small-scale finishing farms. Carcass lesions were visually assessed on the slaughterline in different parts of the carcass, i.e., anterior, middle and posterior, using a three-point scale. Complete blood count was investigated. The following performance indices and carcass composition traits were measured: average lifetime daily weight gain, live, hot and cold carcass weights, cooler shrinkage, dressing percentage, backfat thickness and meatiness. Meat pH and temperature were measured 45 minutes postmortem. Of the 1080 pigs slaughtered in 30 batches, 70.28% displayed some degree of lesions on the carcass (moderate – 30.00%; severe – 40.28%). The carcass lesions were the most prevalent (50.20%) in the posterior part of the pig carcass. RYR 1 genotype, live weight, loading density, lairage time, lairage density and slaughter season affected the carcass lesion prevalence. The presence of carcass lesions, irrespective of severity, was associated with alterations in blood measurements in slaughtered pigs, indicating compromised animal welfare. The presence of severe carcass lesions in slaughtered pigs was significantly associated with increased meat pH45min, which led to the highest occurrence of dark, firm and dry pork. In contrast, there was strong evidence of association between the presence of moderate carcass lesions in slaughtered pigs and both decreased meat pH45min and increased meat T45min, which led to the highest occurrence of pale, soft and exudative pork among the carcass lesion groups. In conclusion, this study showed a high prevalence of carcass lesions in slaughtered pigs, whereby the risk of their occurrence was affected by both animal characteristics and pre-slaughter conditions. Also, the presence of carcass lesions in slaughtered pigs, irrespective of severity, was significantly associated with alterations in the blood measurements and pork quality.

Including genotypic information in genetic evaluations increases the accuracy of sheep breeding values.

The impact of inclusion of genome-wide genotypes into breeding value predictions for UK Texel sheep is addressed in this article. The main aim was to investigate the level of change in the accuracy values for EBVs when information from animal genotypes is incorporated into the genetic evaluations. New genetic parameters for a range of lamb growth, carcass composition and health traits are described and applied in the estimation of conventional breeding values (EBVs) for almost 822,000 animals as well as genomic breeding values (gEBVs) after adding 10,143 genotypes. Principal component analyses showed that there are no major distinct groups; hence, the population is mainly homogenous and genetically well-linked. Results suggested that the highest change in accuracy was observed for the animals that are not phenotyped but have good links to the reference population. This was seen especially for the lowly heritable health traits thereby proving that the use of genotypes in breeding values estimation may accelerate the genetic gain by producing more accurate values especially for young, un-phenotyped animals.

Editing the Melanocortin-4 Receptor Gene in Channel Catfish Using the CRISPR-Cas9 System

The melanocortin-4 receptor (MC4R) plays a critical role in homeostasis and the regulation of body weight. Polymorphisms in the mc4r gene have been discovered and linked to growth, carcass composition, and meat quality traits. Therefore, we used the CRISPR-Cas9 system to target the mc4r gene in the most important freshwater aquaculture species in the USA, channel catfish, Ictalurus punctatus. Guide RNAs were designed to direct the Cas9 to the coding sequence of the channel catfish mc4r gene. gRNA(s)-Cas9 mixtures were delivered into one-cell embryos using electroporation and microinjection. For each treatment, the nature and rate of mutations were analyzed. Hatching and survival rates were calculated. The overall mutation rates were 30.6% and 66.7–90.6% for electroporation and microinjection, respectively. Mutated fish generated via electroporation or microinjection exhibited 38% and 20% improvement in body weight, respectively, when compared with the full-sib control. The mean feed conversion ratio of the mutants was 1.18 compared with 1.57 in the control fish. The improved growth and feed conversion indicate that the generation of mc4r-edited fish could economically benefit aquaculture production.

217 Assessment of Ultrasound Carcass Composition Equations to Predict Empty Body Gain

Abstract The objective of this study was to assess the accuracy of equations used to estimate ultrasound carcass composition for prediction of empty body gain (EBG). The dataset consisted of 8 trials with Angus and Brangus bulls or Brangus heifers (N = 897) fed moderate energy diets for 70 d. Initial and final ultrasound carcass measurements were obtained by trained technicians. Initial and final empty body fat percentage (EBF) was computed using 5 equations: 1) carcass trait equation from Guiroy et al. (2001; 10.2527/2001.7981983x), 2) carcass trait equation 1 from Tedeschi et al. (2004; 10.1016/S0308-521X(03)00070-2), 3) carcass trait equation 6 from Baker et al. (2006; 10.2527/jas.2006-006), 4) ultrasound trait equation 8 from Baker et al. (2006; 10.2527/jas.2006-006), and 5) pEBF = 27.1902 + 47.6268 × uBF – 0.5687 × uLMA – 0.1178 × uBF × pHCW + 0.0014 × uLMA × pHCW; R2 = 0.64, RMSE = 2.46% developed from the training dataset of Baker et al. (2006). Empty body gain was predicted using NASEM (2016) equations. Eq. 5 had slightly improved R2 (0.64 vs. 0.62) and RMSE (2.46 vs. 2.49%) compared with Eq. 4 in the training dataset. When comparing observed and predicted EBG, Eq. 4 had intercept and linear coefficients nearest to 0 and 1, respectively, the greatest CCC (0.799), and mean bias closest to 0 (0.025 kg/d) compared with the other equations. ADG, ultrasound traits, and sex were significant (P < 0.05) variables accounting for variation in differences between observed and predicted EBG, suggesting that these equations are somewhat lacking in their ability to capture the relationships between ultrasound carcass composition traits and retained energy. ADG was less important and gain in LMA was more important in explaining differences between observed and predicted EBG for Eq. 5 than the other equations. These results indicate that use of live animal ultrasound measurements can predict retained energy with reasonably accuracy.

Across-country genetic evaluation of meat sheep from Ireland and the United Kingdom.

Genetic evaluations in sheep have proven to be an effective way of increasing farm profitability. Much research has previously been conducted on producing within‐country genetic evaluations; however, to date, no across‐country sheep genetic evaluations have been produced between Ireland and the UK. The objective of the present study was to examine the feasibility of an across‐country genetic evaluation of live body weight and carcass composition traits for Texel sheep raised in Ireland and the UK. The benefit of genetic selection based on across‐country genetic evaluations, in comparison with within‐country genetic evaluations, was also quantified. Animal traits included early‐life and postweaning live body weights, and muscle and fat depth ultrasound measurements. Irish and UK data were combined, common animals with progeny with records in both countries were identified and a series of bivariate analyses were performed separately for each trait to produce across‐country genetic evaluations. Fixed effects included contemporary group, age at first lambing of the dam, parity of the dam (Ireland), dam age at lamb's birth (UK), a gender by age of the lamb interaction, a birth type by rearing type of the lamb interaction and country of birth of the lamb. Random effects included the animal additive genetic, dam maternal, litter common environment and residual effect. The model for postweaning weight, muscle depth and fat depth included only the animal additive genetic and litter common environmental random effects. Genetic correlations between the two countries ranged from 0.82 to 0.88 for the various traits. Across‐country breeding values were estimated for all animals and response to selection was predicted using the top 10 and top 20 sires in both within‐ and across‐country analyses for the two countries. Overall, results showed that rates of genetic gain could potentially increase from between 2.59% and 19.63% from selection based on across‐country genetic evaluations compared to within‐country evaluations alone. Across‐country evaluations are feasible and would be of significant benefit to both the Irish and UK sheep industries. In order to realize these potential gains though, there would need to be a switch in emphasis by sheep breeders towards using objective traits as their primary selection criteria.

Genome-wide association studies of preweaning growth and in vivo carcass composition traits in Esme sheep.

Sheep are considered as a major contributor of global food security. Moreover, sheep preweaning growth traits as well as in vivo carcass composition traits such as ultrasonic measurements of Longissimus dorsi muscle depth (UMD) and back-fat thickness (UFD) are crucially important indicators of meat yield and hot carcass composition. Despite their relative importance for productivity and profitability of a sheep production system, detected QTL for these traits are quite scarce. Therefore, we implemented GWAS for these traits using animal mixed model-based association approach provided by GenABEL in Esme sheep. Three genome-wide and 14 individual chromosome-wide associated SNPs were discovered. As a result, ESRP1, LOC105613082, ZNF641, DUSP5, TEAD1, SMOX, PTPRT, RALYL, POM121C, PHIP, LOC101106051, ZIM3, PEG3, TRPC7, FBXL4, LOC105610397, LOC105616489 and DNAAF2 were suggested as candidates. Some of the discovered genes and involved pathways were already annotated to contribute growth and development in various species including human, mice and cattle. All in all, the results of this study are expected to strongly contribute to shed a light on the underlying molecular mechanisms behind growth and carcass composition traits, with potential implications on studies aiming faster genetic improvement, targeted low-resolution SNP panel designs and genome-editing studies.

The Chicken Pan-Genome Reveals Gene Content Variation and a Promoter Region Deletion in IGF2BP1 Affecting Body Size.

Domestication and breeding have reshaped the genomic architecture of chicken, but the retention and loss of genomic elements during these evolutionary processes remain unclear. We present the first chicken pan-genome constructed using 664 individuals, which identified an additional approximately 66.5-Mb sequences that are absent from the reference genome (GRCg6a). The constructed pan-genome encoded 20,491 predicated protein-coding genes, of which higher expression levels are observed in conserved genes relative to dispensable genes. Presence/absence variation (PAV) analyses demonstrated that gene PAV in chicken was shaped by selection, genetic drift, and hybridization. PAV-based genome-wide association studies identified numerous candidate mutations related to growth, carcass composition, meat quality, or physiological traits. Among them, a deletion in the promoter region of IGF2BP1 affecting chicken body size is reported, which is supported by functional studies and extra samples. This is the first time to report the causal variant of chicken body size quantitative trait locus located at chromosome 27 which was repeatedly reported. Therefore, the chicken pan-genome is a useful resource for biological discovery and breeding. It improves our understanding of chicken genome diversity and provides materials to unveil the evolution history of chicken domestication.

PSV-16 Effects of the Inclusion of a Capsicum Oleoresin-based Additive on Growth Performance, Carcass Composition and Meat Quality of Pigs Under Heat Stress Conditions

Abstract Capsicum oleoresin has recognized effects on digestion and fat metabolism. A total of 100 PIC x Danbred female pigs were divided in two experimental groups (10 pens/group) from 60Kg body weight (BW) to slaughter: one control group (T1) and another group (T2) where the sensorial additive (350ppm) was added from 90Kg to 130Kg BW. The study was carried out in Mediterranean summer conditions. Experimental rooms turned off their cooling systems at 90Kg BW to the end of the study. Temperature and humidity were recorded using dataloggers (HOBO®). Pig BW and intake were recorded before exposure to the additive and at the end of the administration of experimental feeds. Additionally, backfat thickness (BF) and loin depth (LD) were measured. Respiration rate (RR) and rectal temperature (RT) were also recorded at 0800, 1100, 1400 and 1700h. Carcass and meat quality parameters were measured in the slaughterhouse. Data was analyzed using Proc GLM (performance, carcass and meat quality) and Proc MIXED of repeated measures (RR, RT) of SAS. Environmental data confirmed heat stress conditions for finishing pigs (THI >71 from 0800 to 2200h). Growth performance, BF and LD did not differ between groups. Animals from T2 showed higher (P< 0.05) RR and lower (P< 0.05) RT compared to T1 at 17:00h. At slaughter, animals from T2 tended (P< 0.10) to have a higher fat content (3-4th rib level and ham) compared to T1. Ham pH at 25min and at 20h post-mortem, and drip losses at 48h post-mortem were lower (P< 0.05) in T2 group vs. T1. Concerning the fatty acid profile, the T2 showed a greater concentration of C18:1 and C20:1 compared to T1. In conclusion, the addition of the sensorial additive at the end of the growing period changed carcass composition and quality traits under heat stress conditions.

Identification of Major Loci and Candidate Genes for Meat Production-Related Traits in Broilers

BackgroundCarcass traits are crucial characteristics of broilers. However, the underlying genetic mechanisms are not well understood. In the current study, significant loci and major-effect candidate genes affecting nine carcass traits related to meat production were analyzed in 873 purebred broilers using an imputation-based genome-wide association study.ResultsThe heritability estimates of nine carcass traits, including carcass weight, thigh muscle weight, and thigh muscle percentage, were moderate to high and ranged from 0.21 to 0.39. Twelve genome-wide significant SNPs and 118 suggestively significant SNPs of 546,656 autosomal variants were associated with carcass traits. All SNPs for six weight traits (body weight at 42 days of age, carcass weight, eviscerated weight, whole thigh weight, thigh weight, and thigh muscle weight) were clustered around the 24.08 Kb region (GGA24: 5.73–5.75 Mb) and contained only one candidate gene (DRD2). The most significant SNP, rs15226023, accounted for 4.85–7.71% of the estimated genetic variance of the six weight traits. The remaining SNPs for carcass composition traits (whole thigh percentage and thigh percentage) were clustered around the 42.52 Kb region (GGA3: 53.03–53.08 Mb) and contained only one candidate gene (ADGRG6). The most significant SNP in this region, rs13571431, accounted for 11.89–13.56% of the estimated genetic variance of two carcass composition traits. Some degree of genetic differentiation in ADGRG6 between large and small breeds was observed.ConclusionWe identified one 24.08 Kb region for weight traits and one 42.52 Kb region for thigh-related carcass traits. DRD2 was the major-effect candidate gene for weight traits, and ADGRG6 was the major-effect candidate gene for carcass composition traits. Our results supply essential information for causative mutation identification of carcass traits in broilers.

Towards future genetic evaluations for live weight and carcass composition traits in UK sheep

Abstract The main aim of the current study was to perform a genetic analysis of two live body weight and two carcass composition traits in purebred UK-born Texel, Suffolk and Charollais lambs separately in order to produce future across country evaluations. The two live body weight traits considered were early-life weight (40–85 days of age) and scan weight (121–180 days of age), and the two carcass composition traits were muscle depth and fat depth. Only records from lambs born between 2010 and 2017 were used in the present study resulting in a total of 132,490 records from 55,155 lambs spread over 374 flocks being included for further analysis. An animal linear mixed model was used to derive (co)variance components for the studied traits, for each breed individually. Fixed effects included in the model were contemporary group, dam age at lamb’s birth, dam age at first lambing, a birth type by rearing type of the lamb interaction and a sex by age of the lamb at measurement interaction. Random effects included in the model were the animal additive genetic effect, the dam maternal effect, the litter environment effect and the residual effect. The dam maternal effect applied only to the analysis of early-life weight. Heritability estimates ranged from 0.12 to 0.30 for the two live body weight traits across the three breeds. The two carcass composition traits had heritability estimates ranging from 0.18 to 0.42. Strong positive genetic correlations were observed between all traits analysed. Results from the present study show that genetic variation still exists within breeds for the traits studied indicating that even after over 30 years of genetic selection within the UK they are still amenable to genetic improvement. Furthermore, significant differences in genetic parameters between breeds were observed, especially for carcass composition traits, indicating that genetic evaluations should be calculated separately for each breed.

Effect of two rearing systems on quality of Cinta Senese sausages

Effect of two rearing systems on quality of Cinta Senese sausages

Phenotypic factors associated with lamb live weight and carcass composition measurements in an Irish multi-breed sheep population.

Understanding the phenotypic factors that affect lamb live weight and carcass composition is imperative to generating accurate genetic evaluations and further enables implementation of functional management strategies. This study investigated phenotypic factors affecting live weight across the growing season and traits associated with carcass composition in lambs from a multibreed sheep population. Four live weight traits and two carcass composition traits were considered for analysis namely; birth, preweaning, weaning, and postweaning weight, and ultrasound muscle depth and fat depth. A total of 427,927 records from 159,492 lambs collected from 775 flocks between the years 2016 and 2019, inclusive were available from the Irish national sheep database. Factors associated with live weight and carcass composition were determined using linear mixed models. The heaviest birth, preweaning, and weaning weights were associated with single born lambs (P < 0.001), however by postweaning, there was no difference observed in the weights of single and twin born lambs (P > 0.01). Breed class affected lamb live weight and carcass composition with terminal lambs weighing heaviest and having greater muscle depth than all other breed classes investigated (P < 0.001). Lambs born to first parity dams were consistently lighter, regardless of time of weighing (P < 0.001), while dams lambing for the first time as ewe lambs produced lighter lambs than those lambing for the first time as hoggets (P < 0.001). Greater heterosis coefficients (i.e., >90% and ≤100%) resulted in heavier lambs at weaning compared with lambs with lower levels of heterosis coefficients (P < 0.001). A heterosis coefficient class <10% resulted in lambs with greater muscle depth while recombination loss of <10% increased ultrasound fat depth (P < 0.001). Results from this study highlight the impact of multiple animal level factors on lamb live weight and carcass composition which will enable more accurate bio-economic models and genetic evaluations going forward.

Microbiability of meat quality and carcass composition traits in swine.

The impact of gut microbiome composition was investigated at different stages of production (weaning, Mid‐test and Off‐test) on meat quality and carcass composition traits of 1,123 three‐way crossbred pigs. Data were analysed using linear mixed models which included the fixed effects of dam line, contemporary group and gender as well as the random effects of pen, animal and microbiome information at different stages. The contribution of the microbiome to all traits was prominent although it varied over time, increasing from weaning to Off‐test for most traits. Microbiability estimates of carcass composition traits were greater than that of meat quality traits. Among all of the traits analysed, belly weight (BEL) had a higher microbiability estimate (0.29 ± 0.04). Adding microbiome information did not affect the estimates of genomic heritability of meat quality traits but affected the estimates of carcass composition traits. Fat depth had a greater decrease (10%) in genomic heritability at Off‐test. High microbial correlations were found among different traits, particularly with traits related to fat deposition with a decrease in the genomic correlation up to 20% for loin weight and BEL. This suggested that genomic correlation was partially contributed by genetic similarity of microbiome composition. The results indicated that better understanding of microbial composition could aid the improvement of complex traits, particularly the carcass composition traits in swine by inclusion of microbiome information in the genetic evaluation process.

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.

Effects of edible environmental enrichments during the rearing and laying periods in a littered aviary—Part 2: physical development of pullets and performance, egg quality, and carcass composition in laying hens

Feather pecking and cannibalism are 2 major problems in laying hens' husbandry. Although additional environmental enrichment material (EM) supply is thought to lessen these problems, consistent evidences are lacking. This study examined the effects of EM supply (pecking stones and alfalfa bales) on biological performance, carcass composition, and animal losses in a littered housing system. 2,000 brown-egg and 2,000 white-egg layer hen pullets of the genetic strains Lohmann Brown classic and Lohmann Selected Leghorn classic, respectively, were reared separately in a 16-compartment aviary system until week 18. 1,320 remaining laying hens were then transferred to a 44-compartment laying stable (weeks 19–48). Both strains were tested under 4 treatment variants (n = 150–180 per strain and per variant): V1—no EM over the entire study period; V2—the rearing period with and the laying period without EM; V3—the rearing period without and the laying period with EM; V4—EM over the entire study period. Data on development, performance, egg quality, feed intake, EM consumption, animal losses, carcass composition, and economic traits were collected. Enrichment material supply during rearing (V2 and V4, both strains) was found to globally increase not only hens' relative gizzard mass (P = 0.036) but also the cracked eggs' percentage (compared with V3; P = 0.008) and to decrease the body mass in weeks 6 (P = 0.023) and 8 (P = 0.023) and the uniformity in week 16 (P = 0.011). Enrichment material provision during the laying period (V3 and V4, both strains) increased egg weights (P = 0.028) and the mean body mass (P = 0.036); however, continuous provision of EM (V4, both strains) increased the floor eggs' percentage (P = 0.019). The EM supply did not affect mortality, loss of production days, losses due to skin and toe cannibalism, or the income over feed costs. However, the income over feed and enrichment costs of V1 hens was higher by 0.55 €/hen than that of V4 hens (P = 0.022). Therefore, EM supply cannot be recommended as a measure to increase laying performance and reduce animal losses, but its positive effects on animal welfare should be considered.

Non-Destructive Imaging and Spectroscopic Techniques for Assessment of Carcass and Meat Quality in Sheep and Goats: A Review.

In the last decade, there has been a significant development in rapid, non-destructive and non-invasive techniques to evaluate carcass composition and meat quality of meat species. This article aims to review the recent technological advances of non-destructive and non-invasive techniques to provide objective data to evaluate carcass composition and quality traits of sheep and goat meat. We highlight imaging and spectroscopy techniques and practical aspects, such as accuracy, reliability, cost, portability, speed and ease of use. For the imaging techniques, recent improvements in the use of dual-energy X-ray absorptiometry, computed tomography and magnetic resonance imaging to assess sheep and goat carcass and meat quality will be addressed. Optical technologies are gaining importance for monitoring and evaluating the quality and safety of carcasses and meat and, among them, those that deserve more attention are visible and infrared reflectance spectroscopy, hyperspectral imagery and Raman spectroscopy. In this work, advances in research involving these techniques in their application to sheep and goats are presented and discussed. In recent years, there has been substantial investment and research in fast, non-destructive and easy-to-use technology to raise the standards of quality and food safety in all stages of sheep and goat meat production.