Divergent selection for residual food intake in Rhode Island red egg-laying lines: gross carcase composition, carcase adiposity and lipid contents of tissues

Relationship between feed efficiency and gut microbiota in laying chickens under contrasting feeding conditions

The gut microbiota is known to play an important role in energy harvest and is likely to affect feed efficiency. In this study, we used 16S metabarcoding sequencing to analyse the caecal microbiota of laying hens from feed-efficient and non-efficient lines obtained by divergent selection for residual feed intake. The two lines were fed either a commercial wheat-soybean based diet (CTR) or a low-energy, high-fibre corn-sunflower diet (LE). The analysis revealed a significant line x diet interaction, highlighting distinct differences in microbial community composition between the two lines when hens were fed the CTR diet, and more muted differences when hens were fed the LE diet. Our results are consistent with the hypothesis that a richer and more diverse microbiota may play a role in enhancing feed efficiency, albeit in a diet-dependent manner. The taxonomic differences observed in the microbial composition seem to correlate with alterations in starch and fibre digestion as well as in the production of short-chain fatty acids. As a result, we hypothesise that efficient hens are able to optimise nutrient absorption through the activity of fibrolytic bacteria such as Alistipes or Anaerosporobacter, which, via their production of propionate, influence various aspects of host metabolism.

Design of a generic model based on physiology for persistent organic pollutants in laying hens: Applications on chlordecone and chlorinated paraffins

A Physiology Based Pharmacokinetic (PBPK) model has been developed to predict the kinetics of Persistent Organic Pollutants (POPs) in laying hens. Different datasets have enabled the calibration of the model for chlordecone (CLD), an organochlorine pesticide used in the French West Indies between 1972 and 1993, as well as for chlorinated paraffins (CPs), widely used for various industrial applications worldwide. For this purpose, the sensitivity analysis showed that intake parameters, laying rate, partition coefficients of yolk, hepatic clearance, percentage of metabolism and age were key parameters. Applied to CLD and CPs, this model shows a good capacity for prediction, with 88 % of the experimental values ranging within 1.5-fold of the predicted value at steady state for CPs and 100 % for CLD. The fine modelling of the physiology and the laying process contributes to precision of the model and gives genericity, enabling the switch from one bird species to another. The model can be implemented with other POPs if the clearance and partition coefficient are known.

Long-term divergent selection for residual feed intake in Chinese broiler chickens

This study aimed to assess the effect of inbreeding on production traits using a long-term closed-line population recorded for residual feed intake (RFI). The study first used data from a previously reported population to determine the appropriate period of divergent selection for RFI. The results showed that RFI had similar moderate heritability estimates (0.28-0.34) during the fast-growing period (7-12 wk), and RFI at 7 to 10 wk had the highest heritability (0.34). Therefore, divergent selection was performed in a Chinese broiler population for RFI at 7 to 10 wk; the total sample size from generations zero (G0) to 13 was 9050. The divergence between the 2 lines increased steadily throughout generations, resulting in G13 with average RFI values of 304.55 in high RFI (HRFI) males, -160.31 in low RFI (LRFI) males, 296.30 in HRFI females and -157.55 in LRFI females. The feed intake (FI) and feed conversion ratio were almost higher in HRFI broilers than in LRFI broilers, and the magnitude of the difference in FI increased from approximately 4% for both sexes in G1 to approximately 33% in G13. Body weight gain was irregular from G1 to G13 and higher in LRFI broilers than in HRFI broilers after G10. Indeed, the HRFI broilers consumed more food, but they were lighter than LRFI broilers. In G13, LRFI males had heavier slaughter weight, longer cecum length, more white blood cells (WBC), red blood cells (RBC) and hemoglobin (HGB), but triglycerides, lower dressed percentage, percentage of half eviscerated yield, and eviscerated yield than HRFI males. LRFI females had a higher percentage of breast muscle and gizzard yield, longer cecum length, and more WBCs, RBCs and HGB but less abdominal fat and serum total cholesterol than HRFI females. This study was the first to verify that long-term divergent selection for RFI in Chinese broiler chickens is positive and beneficial.

Assessment of trade-offs between feed efficiency, growth-related traits, and immune activity in experimental lines of layer chickens

Background

In all organisms, life-history traits are constrained by trade-offs, which may represent physiological limitations or be related to energy resource management. To detect trade-offs within a population, one promising approach is the use of artificial selection, because intensive selection on one trait can induce unplanned changes in others. In chickens, the breeding industry has achieved remarkable genetic progress in production and feed efficiency over the last 60 years. However, this may have been accomplished at the expense of other important biological functions, such as immunity. In the present study, we used three experimental lines of layer chicken—two that have been divergently selected for feed efficiency and one that has been selected for increased antibody response to inactivated Newcastle disease virus (ND3)—to explore the impact of improved feed efficiency on animals’ immunocompetence and, vice versa, the impact of improved antibody response on animals’ growth and feed efficiency.

Results

There were detectable differences between the low (R+) and high (R−) feed-efficiency lines with respect to vaccine-specific antibody responses and counts of monocytes, heterophils, and/or T cell population. The ND3 line presented reduced body weight and feed intake compared to the control line. ND3 chickens also demonstrated an improved antibody response against a set of commercial viral vaccines, but lower blood leucocyte counts.

Conclusions

This study demonstrates the value of using experimental chicken lines that are divergently selected for RFI or for a high antibody production, to investigate the modulation of immune parameters in relation to growth and feed efficiency. Our results provide further evidence that long-term selection for the improvement of one trait may have consequences on other important biological functions. Hence, strategies to ensure optimal trade-offs among competing functions will ultimately be required in multi-trait selection programs in livestock.

Supplementary Information

The online version contains supplementary material available at 10.1186/s12711-021-00636-z.

Impact of the genetic background on the composition of the chicken plasma MiRNome in response to a stress

Circulating extra-cellular microRNAs (miRNAs) have emerged as promising minimally invasive markers in human medicine. We evaluated miRNAs isolated from total plasma as biomarker candidates of a response to an abiotic stress (feed deprivation) in a livestock species. Two chicken lines selected for high (R+) and low (R-) residual feed intake were chosen as an experimental model because of their extreme divergence in feed intake and energy metabolism. Adult R+ and R- cocks were sampled after 16 hours of feed deprivation and again four hours after re-feeding. More than 292 million sequence reads were generated by small RNA-seq of total plasma RNA. A total of 649 mature miRNAs were identified; after quality filtering, 148 miRNAs were retained for further analyses. We identified 23 and 19 differentially abundant miRNAs between feeding conditions and between lines respectively, with only two miRNAs identified in both comparisons. We validated a panel of six differentially abundant miRNAs by RT-qPCR on a larger number of plasma samples and checked their response to feed deprivation in liver. Finally, we evaluated the conservation and tissue distribution of differentially abundant miRNAs in plasma across a variety of red jungle fowl tissues. We show that the chicken plasma miRNome reacts promptly to the alteration of the animal physiological condition driven by a feed deprivation stress. The plasma content of stress-responsive miRNAs is strongly influenced by the genetic background, with differences reflecting the phenotypic divergence acquired through long-term selection, as evidenced by the profiles of conserved miRNAs with a regulatory role in energy metabolism (gga-miR-204, gga-miR-let-7f-5p and gga-miR-122-5p). These results reinforce the emerging view in human medicine that even small genetic differences can have a considerable impact on the resolution of biomarker studies, and provide support for the emerging interest in miRNAs as potential novel and minimally invasive biomarkers for livestock species.

Expression profile of hypothalamic neuropeptides in chicken lines selected for high or low residual feed intake

The R(+) and R(-) chicken lines have been divergently selected for high (R(+)) or low (R(-)) residual feed intake. For the same body weight and egg production, the R(+) chickens consume 40% more food than their counterparts R(-) lines. In the present study we sought to determine the hypothalamic expression profile of feeding-related neuropeptides in these lines maintained under fed or food-deprived conditions. In the fed condition, the suppressor of cytokine signaling 3 (SOCS3) was 17-fold lower (P<0.05) and the ghrelin receptor was 7-fold higher (P<0.05) in R(+) compared to R(-) chicken lines. The hypothalamic expression of the other studied genes remained unchanged between the two lines. In the fasted state, orexigenic neuropeptide Y and agouti-related peptide were more responsive, with higher significant levels in the R(+) compared to R(-) chickens, while no significant differences were seen for the anorexigenic neuropeptides pro-opiomelanocortin and corticotropin releasing hormone. Interestingly, C-reactive protein, adiponectin receptor 1 and ghrelin receptor gene expression were significantly higher (12-, 2- and 3-folds, respectively), however ghrelin and melanocortin 5 receptor mRNA levels were lower (4- and 2-folds, P=0.05 and P=0.03, respectively) in R(+) compared to R(-) animals. We identified several key feeding-related genes that are differently expressed in the hypothalamus of R(+) and R(-) chickens and that might explain the difference in feed intake observed between the two lines.

Further investigations on the role of diet-induced thermogenesis in the regulation of feed intake in chickens: comparison of adult cockerels of lines selected for high or low residual feed intake

The main objective of this study was to investigate the role of diet-induced thermogenesis (DIT) in feed intake regulation in cockerels selected for high (R+) or low (R-) residual feed intake. The selection criterion was defined as the difference between observed feed intake and feed intake predicted by regression between feed intake and BW, BW gain, and egg mass production. Furthermore, the effect of genotype on postprandial oxidation of U-(13)C(6)-glucose, decarboxylation of 1-(13)C(1)-Leu, and key metabolites and hormones was analyzed. Thirty 24-wk-old cockerels of both lines were kept in battery cages under standard conditions on a commercial diet. Three cockerels per genotype were examined twice weekly from wk 30 through 34 in open-circuit respiratory cells. After adaptation, cockerels were feed deprived for 24 h and heat production was measured. During the subsequent 7-h refeeding period, DIT and feed intake, as well as glucose oxidation and Leu decarboxylation were assessed by using breath tests. Blood samples were collected after fasting and refeeding. Finally, 10 animals per genotype were killed to record abdominal fat weight. Body composition of 6 different chickens per genotype was determined by using dual-energy x-ray absorptiometry. During feed deprivation, the R+ cockerels had a significantly higher heat production than their R- counterparts, which was even more pronounced during refeeding. Consequently, the R+ cockerels had a significantly increased DIT and a higher feed intake than the R- cockerels. Thus, no evidence of a feedback effect of DIT on feed intake was observed. The oxidation of U-(13)C(6)-glucose was significantly higher in the R+ cockerels, confirming their higher respiratory quotient values and the augmented fat deposition in the R- chickens, as assessed by abdominal fat weight and dual-energy x-ray absorptiometry measurements. No significant genotype effect on 1-(13)C(1)-Leu decarboxylation was observed, despite increased circulating uric acid levels in the R+ chickens. Genotype did not influence plasma levels of triglycerides, free fatty acids, glucose, triiodothyronine, or thyroxine after refeeding, whereas plasma leptin levels were significantly higher in the R+ cockerels.

Energy Partitioning and Thyroid Hormone Levels During Salmonella enteritidis Infections in Pullets with High or Low Residual Feed Intake

This experiment was conducted to investigate whether feed efficiency, as measured by residual feed intake as a phenotypic trait, affects energy partitioning in pullets that have received Salmonella inoculation as an immune challenge. In each of 8 trials, energy partitioning was measured during 5 wk in 15-wk-old efficient (R-) and nonefficient (R+) pullets, which were housed per efficiency group in 2 identical climate respiration chambers. After 1 wk of adaptation, the pullets in 4 trials were orally inoculated with 10(8) cfu of Salmonella enteritidis; pullets in the remaining trials were not inoculated and served as controls. Heat production was calculated from continuous recordings of O(2) consumption and CO(2) production. Energy and N partitioning were recorded on a weekly basis. Blood samples for analyses on thyroid hormones were taken at 16, 17, and 19 wk of age. There were no interactions between efficiency type and Salmonella treatment or Salmonella treatment effects in energy partitioning, except for a short-term increase in heat production in inoculated pullets. Nonefficient pullets had higher gross energy and ME intake, higher estimated ME for maintenance, lower ME:gross energy ratio, and higher total heat production and nonactivity-related heat production compared with R- pullets. Triiodothyronine levels in R+ pullets were higher at 16 and 17 wk but were lower at 19 wk of age compared with R- pullets. Thyroxine levels were higher in R- at 16 wk and showed interactions between efficiency type and Salmonella treatment at 17 and 19 wk of age. Body weights and spleen weights did not differ between efficiency groups. Nonefficient pullets had higher heart, liver, and ovary weights and more large yellow follicles than R- pullets. There were no Salmonella effects on body and organ weights. We conclude that R+ pullets have a faster running energy metabolism and that they put more resources into organ development than R- pullets. Inoculation with Salmonella has a short-term effect on nonactivity-related heat production but does not affect energy partitioning, regardless of efficiency type.

Phenotypic selection for residual feed intake and its effect on humoral immune responses in growing layer hens

According to the resource allocation theory, animals have to make a trade-off between resource-demanding life traits to obtain maximal fitness. Artificial selection toward efficient producing farm animals, however, may have created animals that have an impaired ability to divert resources to maintenance processes, such as responding to immune challenges. Residual feed intake (RFI), defined as the difference between observed feed intake (FI) and expected feed intake based on metabolic BW and growth, was used as a measure for feed efficiency. Individual BW and FI of 352 pullets were recorded weekly from 4 until 14 wk of age to estimate RFI. The top 50 efficient R- and the top 50 nonefficient R+ birds were selected. BW and BW gain in both groups were similar. FI and RFI, however, were significantly higher in R+ birds. Thirty animals out of every group were randomly allocated to 1 of 3 treatments: immunization with keyhole limpet hemocyanin (KLH), Mycobacterium butyricum, or heat-inactivated Salmonella enteritidis bacteria. Antibody titers against KLH, M. butyricum, or Salmonella lipopolysaccharide did not differ between R+ and R- birds. The antibody titer against Salmonella protein was higher in R+ birds. We concluded that a population of chickens from a commercial breed shows considerable variation in RFI. Specific antibody production against KLH, M. butyricum, and S. enteritidis lipopolysaccharide, however, is not influenced by efficiency in terms of RFI. R+ animals may have a higher level of nonantigen specific antibodies, as indicated by the higher antibody response to Salmonella protein.

Differential expression and genetic variation of hepatic messenger RNAs from genetically lean and fat chickens

Although excessive adiposity has become a major drawback in meat type chicken production, few of the genes involved in this process have been characterized so far. In order to identify putative genes involved in adiposity, we performed differential display analysis of RNAs extracted from the liver of divergently selected lean and fat chickens. Twenty-six differential products were selected and purified by single strand conformation polymorphism gel electrophoresis before sequencing and Northern blot analyses. An orthologous sequence of a mammalian cytochrome P450 2C subfamily member was proven to be differentially expressed in the liver of lean and fat chickens and could play an important role in the regulation of adiposity. In mammals, these genes are involved in detoxification of xenobiotics and metabolism of some important biological compounds. Four other genes were found differentially expressed to a lower extent. Some unidentified products were shown to be lean or fat specific, with sequence polymorphism and liver specific expression, strongly suggesting that the related gene could be directly involved in adiposity. Our data indicate that differential display can evidence genes with differential expression and with sequence polymorphism, making this strategy more accurate for differential analysis of messenger RNAs.

Dietary protein regulates in vitro lipogenesis and lipogenic gene expression in broilers

The purpose of this experiment was to determine the possible relationship between certain indices of lipid metabolism and specific gene expression in chickens fed graded levels of dietary crude protein. Male, broiler chickens growing from 7 to 28 days of age were fed diets containing 12, 21 or 30% protein ad libitum. In addition, another group of birds was fed on a regimen consisting of a daily change in the dietary protein level (12 or 30%). This latter group was further subdivided such that one-half of the birds received each level of protein on alternating days. Birds were sampled from 28 to 30 days of age. Measurements taken included in vitro lipogenesis, malic enzyme activity the expression of the genes for malic enzyme, fatty acid synthase and acetyl coenzyme carboxylase. In vitro lipogenesis and malic enzyme activity were inversely related to dietary protein levels (12-30%) and to acute changes from 12 to 30%. In contrast, expression of malic enzyme, fatty acid synthase and acetyl CoA carboxylase genes were constant over a dietary protein range of 12-21%, but decreased by feeding a 30% protein diet (acute or chronic feeding). Results of the present study demonstrate a continued role for protein in the regulation of broiler metabolism. It should be pointed out, however, that metabolic regulation at the gene level only occurs when feeding very high levels of dietary protein.

An uncoupling protein homologue putatively involved in facultative muscle thermogenesis in birds

The cDNA of an uncoupling protein (UCP) homologue was obtained by screening a chicken skeletal-muscle library. The predicted 307-amino-acid sequence of avian UCP (avUCP) is 55, 70, 70 and 46% identical with mammalian UCP1, UCP2 and UCP3 and plant UCP respectively. avUCP mRNA expression is restricted to skeletal muscle and its abundance was increased 1.3-fold in a chicken line showing diet-induced thermogenesis, and 3.6- and 2.6-fold in cold-acclimated and glucagon-treated ducklings developing muscle non-shivering thermogenesis respectively. The present data support the implication of avUCP in avian energy expenditure.

Glucose-insulin relationships and thyroid status of cockerels selected for high or low residual food consumption

The plasma glucose-insulin relationships and thyroid status were investigated in two lines of adult cockerels divergently selected for high (R+) or low (R-) residual food consumption (RFC). For a given body weight, R+ birds had a 74% higher food intake than R- birds. Plasma glucose concentrations were significantly lower in the R+ line compared with the R- when fasted, whereas R+ birds exhibited a significantly lower plasma insulin concentration than R- birds either in fed or fasted state. After an overnight fast, R+ birds also exhibited a higher sensitivity to exogenous insulin in view of its more pronounced hypoglycaemic effect. After an oral glucose load, the glucose disposal of R+ cockerels was faster despite lower glucose-induced plasma insulin concentration. Whilst plasma triacylglycerol concentrations were lower in the R+ line when fed, plasma non-esterified fatty acid concentrations were higher in fasted R+ than R- cockerels (684 v. 522 mumol/l). Higher plasma triiodothyronine concentrations were observed in fed R+ compared with R- birds (3.0 v. 2.1 nmol/l respectively). The higher plasma concentrations of triiodothyronine associated with lower concentrations of insulin could account for the leanness and the elevated diet-induced thermogenesis previously observed in the R+ line.

Molecular characterization of endogenous viral genes of the avian leukosis virus family in an experimental population of brown-egg layers

Retroviral DNA sequences similar to the exogenous avian leukosis virus can be found in the genome of many chicken breeds and have been identified as the ALVE family of endogenous viral (ev) genes. Most of them have been described by a restriction fragment length polymorphism (RFLP) procedure with two restriction enzymes and a full length viral probe. In order to facilitate the comparison of ALVE genes between strains, the nomenclature workshop held at the XXIV International Society for Animal Genetics Congress recommended that four enzymes and several viral subprobes be used to characterize each locus. This approach has been followed in the present study of a Rhode Island Red experimental population. A previous study had identified ev genes with the SacI and BamHI enzymes and the Rous-associated virus-2 probe (RAV-2). Chickens carrying only one ALVE locus at a time have been produced to facilitate the analysis. Additional enzymes (EcoRI, HindIII, and KpnI), the full probe RAV-2 and three viral subprobes for the gag, pol, and LTR regions have been used. In addition, a PCR diagnostic test has been used to search for homologies with the ALVE1 (= ev1), ALVE6 (= ev6) and evA loci. Currently, 12 loci have been identified precisely: three were identical to ALVE loci described previously, either in White Leghorns, ALVE6 and ALVE18 (= ev18) or in broilers (evB8). In addition, the evB8 locus was found to be identical to the evA locus previously described in brown-egg layers. Nine loci appeared specific to this Rhode Island Red population. Four of these specific loci were complete and one of them could be considered of characteristic of this population, because of its very high frequency. The remaining five specific loci showed small deletions, either in the pol region for one of them or in the env region for three of them or at the 3' long terminal repeat for one of them. Altogether, 5 out of 12 loci were structurally complete, which could suggest that deleted proviruses may have been preferentially retained.

A role for thyroid hormones in the regulation of diet-induced thermogenesis in birds

The possible involvement of thyroid hormones in avian diet-induced thermogenesis (DIT) was investigated in two lines of cockerels divergently selected for high (R-) or low (R+) food efficiency. For a given body weight, R+ cockerels exhibited a higher food intake than R- cockerels (+49 to +76%) and increased DIT (+25%). Plasma thyroxine (T4) level did not differ between lines whatever the feeding status of the birds. Plasma 3,5,3'-triiodothyronine (T3) level was lower in fasted R+ than in fasted R- cockerels while the opposite was observed after a meal. Iopanic acid injections reduced both plasma T3 concentrations and heat production to the same levels in both lines. Hepatic 5'-deiodinase activity measured with an exogenous sulfhydryl group (dithiothreitol) did not differ between lines, but when the sulfhydryl group was omitted, the activity was higher in R+ than in R- birds (90 v. 42 pmol T3/min per liver). T3-binding capacity of isolated hepatic nuclei was higher (+76%) in R+ than in R- birds. Long-term or acute pair-feeding of R+ cockerels to the level of R- controls did not alter these results. The present results suggest that T3, mainly originating from peripheral conversion of T4 to T3, is involved in DIT in the R+ line. Availability of endogenous sulfhydryl groups appears to play an important part in the modulation of hepatic deiodinase activity. The higher concentration of nuclear T3 receptors may further increase the effects of the hormone, suggesting a major role of thyroid hormones associated with catecholamines in the stimulation of avian DIT. The underlying thermogenic mechanisms remain to be elucidated.

Diet-induced thermogenesis in cockerels is modulated by genetic selection for high or low residual feed intake

Energy balance of adult cockerels genetically selected for high (R+) or low (R-) residual feed consumption was investigated by using indirect calorimetry. Although no between-line difference was found in digestion of ingested energy, the true metabolizable energy (ME) intake was 40% greater in R+ than in R- birds. Basal heat production (HP) did not significantly differ between genotypes. Diet-induced thermogenesis (DIT) was significantly enhanced in R+ compared with R- birds, i.e., +84% when expressed as the difference in kilojoules of heat production determined in feed-deprived and fed cockerels, +31% when calculated as a percentage of ME intake (P < 0.01). The difference in DIT calculated from the regression between HP and physical activity explained 75% of the difference in HP; the remaining 25% could be explained by activity-related HP. The results cannot be explained by differences in the plasma concentration of circulating thyroid hormones: plasma thyroxine concentration did not differ between genotypes, whereas plasma triiodothyronine concentration was lower in feed-deprived R+ than in R- birds and indistinguishable in fed birds of the two lines. Heat production, however, was higher in the R+ line. Propranolol decreased HP only in the R+ line, suggesting a beta-adrenergic control of DIT at least in cockerels of this line. Plasma triglyceride concentration was lower in the R+ than in the R- line in fed cockerels, and plasma nonesterified fatty acid concentration was higher in the R+ than in the R- line in feed-deprived cockerels. These results are consistent with the leanness of the R+ compared with the R- line. The R+ and R- lines constitute an original model of diet-induced thermogenesis (DIT), a process that is under genetic control of appetite and allows R+ birds to balance all of their excessive energy intake without any adipose tissue storage.

Associated effects of divergent selection for residual feed consumption on reproduction, sperm characteristics, and mitochondria of spermatozoa

Eighteen generations of divergent selection for residual feed intake have been completed in two Rhode Island Red lines of domestic fowl. The high intake R+ line and the low intake R- line cocks used to sire Generation 19 of the selection experiment have been compared for associated responses on fertility, hatching, and sperm quality. Evaluations of sperm samples were based on volume, cell concentration, biochemical parameters (pH, uric acid and protein concentrations), and motility and morphology of spermatozoa. Finally, individual spermatozoa were analyzed by flow-cytometry (FCM) using Rhodamine 123 (Rh123) and nonyl-acrydine-orange (NAO) specific fluorochromes to assess, respectively, overall mitochondrial activity and overall mitochondrial content. Hatchability of incubated eggs was 20 points higher for the R- line, mainly because unfertilized eggs were only 6 vs 30% in the R+ line. Early embryo mortality was also twice as high in the R+ line (21%). The ratio of Rh123 to NAO fluorescence was identical for both lines. This result suggests that there was no difference in the energy producing potential of the individual mitochondria. Therefore, the difference seen for both dyes between the two lines might be attributed to a difference in the quantity of mitochondrial inner membranes present in the cell (with 17% less for the R+ line). In the R+ line, the poor performance at fertilization and during early embryonic development was associated with lower production of motile spermatozoa, possibly in relation to a lower quantity of mitochondria in spermatozoa from R+ cocks. Although the female contribution to the differences between lines was not explored separately, results suggest that selection for residual feed intake may have altered some cellular function related to the production of energy in the R+ line.