Phenotypic characterisation of extreme growth-selected mouse lines: An important prerequisite for future QTL analysis

A unique set of seven mouse lines, long-term selected for high growth, from different laboratories around the world has been comprehensively compared to evaluate these resources for future QTL and gene mapping for growth traits. The heaviest line (DUH) was 40% (males) to 44% (females) heavier than the smallest line (ROH) at birth, and 105% (males) to 114% (females) heavier at 98 d. Body conformation (body length and width, body areas), body composition (dry matter, fat, fatty acid composition, organ weights), and skeletal muscle cellularity also differed substantially. DUH was more than 20% longer (12.3 cm) compared to the shortest line ROH (9.7 cm). DAH (22.5%) had the highest percentage of gonadal fat and the leanest was BEH (7.7%). Line BEH (0.49 g) showed the highest weight for the left M. rectus femoris, which was 2.1 times higher, compared to ROH (0.23 g). These results suggest that different alleles, and possibly different physiological pathways, have contributed to the selection response in the different lines. Therefore these selection lines are an important tool with which to identify the genetic and physiological basis of growth as they may contain many, if not all, growth promoting alleles.     

Mapping QTL for growth and shank traits in chickens divergently selected for high or low body weight

An F₂ population (695 individuals) was established from broiler chickens divergently selected for either high (HG) or low (LG) growth, and used to localize QTL for developmental changes in body weight (BW), shank length (SL9) and shank diameter (SD9) at 9 weeks. QTL mapping revealed three genome‐wide QTL on chromosomes (GGA) 2, 4 and 26 and three suggestive QTL on GGA 1, 3 and 5. Most of the BW QTL individually explained 2–5% of the phenotypic variance. The BW QTL on GGA2 explained about 7% of BW from 3 to 7 weeks of age, while that on GGA4 explained 15% of BW from 5 to 9 weeks. The BW QTL on GGA2 and GGA4 could be associated with early and late growth respectively. The GGA4 QTL also had the largest effect on SL9 and SD9 and explained 7% and 10% of their phenotypic variances respectively. However, when SL9 and SD9 were corrected with BW9, a shank length percent QTL was identified on GGA2. We identified novel QTL and also confirmed previously identified loci in other chicken populations. As the foundation population was established from commercial broiler strains, it is possible that QTL identified in this study could still be segregating in commercial strains.     

Effect of reciprocal crossing of selected lines of mice

Summary Mass selection of mice was conducted in populations of various size for 16 generations. Each selected population (E) corresponded to an analogous unselected population (C). The experiment was conducted in three replicates. After the 16th generation the replicates of the selected and control lines were crossed.Reciprocal crossing within the control lines gave better results than reciprocal crossing of the selected lines, despite the fact that the selected mice were characterised by a higher inbreeding coefficient. Larger effects were also obtained when crossing smaller rather than larger populations. This result is understandable since the animals from the smaller populations were characterised by higher inbreeding coefficients.The effect of heterosis was higher upon crossing the control lines rather than the selected ones and this caused a decreased the response to selection in almost all the traits investigated.This work was partly supported by U.S. Department of Agriculture, Grant No. FG-Po-348/JB-13/, Project No. PL-ARS-68     

Feed efficiency and body composition of selected and unselected mice

Summary An examination was carried out of the feed intake, feed efficiency and body composition of selected and unselected mice. It was demonstrated that selected mice utilised food more economically, and, in total, produced more protein than the control animals. However, selection had a negative influence on the percentage content of protein and ash. Also, selection caused greater adiposity of selected females and a greater water content in the bodies of selected males (in %).This work was partly supported by grant No. FG-Po-348 (JB-13), Project No. PL-ARS-68.     

DNA fingerprints of chickens selected for high and low body weight for 31 generations

Two lines of White Plymouth Rock chickens that have been divergently selected for 8-week body weight for 31 generations were compared for patterns of DNA fingerprints (DFP). Digestion of DNA with HinfI and hybridization to Jeffreys' minisatellite probe 33.6 resulted in DFPs that were relatively similar within lines (bandsharing = 0.50) and less similar between lines (bandsharing = 0.22). Analyses of scorable DFP bands produced by mixing DNA from individuals within lines indicated that 48% were line-specific. Causes for the differences in DFP patterns between lines and for occurrence of line-specific bands for the two lines divergently selected for body weight are discussed.     

Heterosis among lines of mice selected for body weight

Summary To examine the effect of selection on levels of heterosis, crosses were made between three groups of six lines of mice, one group unselected (controls) and the other two selected for high (large lines) and low (small lines) 6-week body weight, respectively. The coefficient of inbreeding of each line was about 0.60. Each line was crossed reciprocally to one line from each of the parental groups, as well as producing purebred progeny. Heterosis for 3-week weight, 6-week weight and 3–6 week gain averaged 0.0%, 2.4% and 4.2%, respectively, and was higher for males than for females. Heterosis was more extensive in crosses involving large or control lines than in crosses with small lines. There was no detectable heterosis in several measures of developmental rate, such as age at vaginal opening. Food conversion efficiency and carcass composition were measured on a sample of the animals. Food consumption, gonadal fat pad weight, and hindquarters weight, each expressed as a proportion of body weight, exhibited –4.0%, 5.6%, and 2.3% heterosis, respectively.     

Relationship of brown adipose tissue with growth and obesity differences in genetically selected mouse lines

A recent hypothesis considers brown adipose tissue (BAT) to be an important source of diet-induced thermogenesis (DIT). In turn, DIT and thermogenesis in general are believed to be key factors in the control of obesity of laboratory rodents. This hypothesis was developed from the study of single gene mutant obese rodents. The present research tested this hypothesis in mice with polygenic control of growth and obesity, which is more characteristic of the type of genetic variation expected in human and other mammalian populations. Control and high fat diets were used to test responses of five genetically selected lines of mice showing different patterns of growth and obesity. All lines deposited more fat on the high fat diet, but the most obese line showed the largest increase in BAT and the lipid-free dry (LFD) component of BAT. Use of LFD per unit body weight gave results which supported the hypothesis being tested, but it was argued that this measure is misleading. When brown and white adipose tissue growth relative to body weight were examined, 2 of the 10 line-diet groups showed alterations in BAT growth patterns. However, it was concluded that BAT, if involved at all, was not a major factor in growth and obesity differences.     

Polymorphism analysis in genes of the somatotropic axis in Nellore cattle selected for growth

The somatotropic axis consists of genes that are involved in muscular development. These genes are potential regions of study to identify possible QTL for economically important traits in beef cattle. The aim of this study was to verify the existence of GH1, POU1F1, and GHR polymorphisms in Nellore cattle to verify the influence of selection in these mutations and to analyse the association between molecular markers and body weight at different ages, yearling hip height, carcass fat thickness and loin eye area. Six hundred forty-five animals from the Centro APTA Bovinos de Corte, were genotyped by PCR–RFLP techniques. The association analyses were performed with general mixed models taking into consideration the effect of one marker, and other model taking into consideration interactions between two molecular markers. Only the molecular markers rs81109601 on GH1 and rs109136815 on GHR were polymorphic; however, they were not found to be under selection. The association of the GHR rs109136815 marker and loin eye area was observed (p < 0.05), as well as the effect of interaction between the markers and the female body weight at 550 days of age (p < 0.04). The interaction effect should be considered in situations where the interactivity between two genes is known.     

Organ growth of selected lines of chickens and their F1 crosses to a common body weight or age

Summary Organ growth of male chickens selected for high and low 56-day body weight and their reciprocal F₁ crosses was compared at a common age (56 days) or at a common body weight (180 g). Organs that differed at a common body weight included weights of proventriculus, small intestine, lungs, feathers and abdominal fat and length of esophagus. Organ weights that differed at a common age included esophagus, gizzard, heart, liver, lungs, breast, legs, feathers and abdominal fat, and lengths of shank, esophagus and small intestine. Heterosis for most organs was less than 15%. Those exhibiting heterosis greater than 30% included weights of fat depots and feathers, plus lengths of the esophagus, small intestine and shank. Heterosis for these traits, however, varied depending on whether comparisons were made at common body weight or age. These results imply that biological functions of organs at specific ages may not reflect the situations at common body weights and suggest differences in resource allocations among populations.     

Comparison of growth curves of mice selected and unselected for postweaning gain

Summary Mice were sampled from a line selected for increased postweaning weight gain from three to six weeks and from a randombred control line originating from the same base population. Body weights were recorded at each of 14 ages from day 5 to day 98. The Richards and logistic growth functions were fitted to the growth trajectories of each individual mouse by a generalized non-linear least squares procedure. Estimated growth parameters (asymptotic weight, rate, shape of curve, age and weight at inflection, mean absolute growth rate and mean relative growth rate) were computed for each individual. The effects of line, litter within line, sex and line × sex interactions on these estimated parameters were then studied.Both the Richards and logistic functions fitted the data equally well and the plotted trajectories coincided over most of the growth curve. There was excellent agreement between the estimates of asymptotic weight and both age and weight at inflection based on the different functions. However, both functions apparently underestimated the asymptotic weight.Analyses of the line differences showed that selection for postweaning gain increased the mean absolute growth rate over the entire curve but had no effect on the relative growth rate or the shape of the growth curve. Full-sib analyses suggested the presence of considerable genetic variation and some high genetic correlations among the estimated growth parameters.Paper number 2942 of the Journal Series of the North Carolina State University Agricultural Experiment Station, Raleigh, North Carolina. This research was supported in part by Public Health Service Research Grant GM 11546. Computing services were supported by NIH Grant FR-00011.     

Genetic and environmental (inter)actions in male mouse lines selected for aggressive and nonaggressive behavior

The purpose of this study was to investigate the effects of genetic and environmental factors, as well as their interaction, in the etiology of aggressive behavior in two mouse lines bidirectionally selected for offensive aggression. To this end, we raised the Finnish TA (aggressive) and TNA (nonagressive) selection lines either in isolation or in cohabitation with a female after weaning. At the age of 3 months we determined their aggressive behavior in three paradigms (intruder resident, neutral cage, resident intruder) against a male standard opponent. We also determined the animals' aggressive behavior against a female mouse. The results show genetic and environmental effects, as well as gene–environment interaction. We see prominent genotype effects under all conditions but each test is sensitive to a specific combination of environmental effects. A particularly noteworthy result is that variation in the unusual behavior of aggression towards a female is largely explained by the interaction of genotype with isolation. We also examined whether test experience influenced the outcome of an encounter between an experimental animal and an opponent, and found that this factor should not be underestimated, its effect size and direction depending on the type of paradigm and way of housing. These data suggest that the identification of genes underlying aggressive behavior in mice is by no means straightforward and that the result of this search will depend on the environmental design of the study (type of paradigm, housing conditions). These data also suggest that the use of 'test battery' mice might produce different results than the use of test-naïve animals.     

Complex traits analysis of chicken growth using targeted genetical genomics

Dissecting the genetic control of complex trait variation remains very challenging, despite many advances in technology. The aim of this study was to use a major growth quantitative trait locus (QTL) in chickens mapped to chromosome 4 as a model for a targeted approach to dissect the QTL. We applied a variant of the genetical genomics approach to investigate genome-wide gene expression differences between two contrasting genotypes of a marked QTL. This targeted approach allows the direct quantification of the link between the genotypes and the genetic responses, thus narrowing the QTL-phenotype gap using fewer samples (i.e. microarrays) compared with the genome-wide genetical genomics studies. Four differentially expressed genes were localized under the region of the QTL. One of these genes is a potential positional candidate gene (AADAT) that affects lysine and tryptophan metabolism and has alternative splicing variants between the two genotypes. In addition, the lysine and glycolysis metabolism pathways were significantly enriched for differentially expressed genes across the genome. The targeted approach provided a complementary route to fine mapping of QTL by characterizing the local and the global downstream effects of the QTL and thus generating further hypotheses about the action of that QTL.     

Identification of chromosomal regions associated with growth and carcass traits in an F3 full sib intercross line originating from a cross of chicken lines divergently selected on body weight

An F₃ resource population originating from a cross between two divergently selected lines for high (D+ line) or low (D− line) body weight at 8-weeks of age (BW55) was generated and used for Quantitative Trait Locus (QTL) mapping. From an initial cross of two founder F₀ animals from D(+) and D(−) lines, progeny were randomly intercrossed over two generations following a full sib intercross line (FSIL) design. One hundred and seventy-five genome-wide polymorphic markers were employed in the DNA pooling and selective genotyping of F₃ to identify markers with significant effects on BW55. Fifty-three markers on GGA2, 5 and 11 were then genotyped in the whole F₃ population of 503 birds, where interval mapping with GridQTL software was employed. Eighteen QTL for body weight, carcass traits and some internal organ weights were identified. On GGA2, a comparison between 2-QTL vs. 1-QTL analysis revealed two separate QTL regions for body, feet, breast muscle and carcass weight. Given co-localization of QTL for some highly correlated traits, we concluded that there were 11 distinct QTL mapped. Four QTL localized to already mapped QTL from other studies, but seven QTL have not been previously reported and are hence novel and unique to our selection line. This study provides a low resolution QTL map for various traits and establishes a genetic resource for future fine-mapping and positional cloning in the advanced FSIL generations.     

Analysis of lethals in selected lines of Drosophila melanogaster

Summary Five lines of Drosophila melanogaster that reached an extreme phenotype after long-term selection for increased dorsocentral bristle number, were analysed for the presence of lethals. Seven chromosome II and three chromosome III lethal types were detected in four of the lines, at frequencies ranging from between 6% and 36%. No lethal had any demonstrable effect over the selected trait. In one line, where almost every chromosome II was a lethal carrier, it was shown that the main lethal (at a frequency of 36%) was associated with the transmission ratio distortion in males. The processes which could lead to the accumulation of this lethal and others linked in disequilibrium to it is discussed. Some results suggest similar mechanisms for the accumulation of lethals in the other lines. These findings show that causes other than the direct effect of artificial selection must be taken into account when trying to explain the accumulation of lethals in selected lines.     

Genome characterization of the selected long- and short-sleep mouse lines

The Inbred Long- and Short-Sleep (ILS, ISS) mouse lines were selected for differences in acute ethanol sensitivity using the loss of righting response (LORR) as the selection trait. The lines show an over tenfold difference in LORR and, along with a recombinant inbred panel derived from them (the LXS), have been widely used to dissect the genetic underpinnings of acute ethanol sensitivity. Here we have sequenced the genomes of the ILS and ISS to investigate the DNA variants that contribute to their sensitivity difference. We identified ~2.7 million high-confidence SNPs and small indels and ~7000 structural variants between the lines; variants were found to occur in 6382 annotated genes. Using a hidden Markov model, we were able to reconstruct the genome-wide ancestry patterns of the eight inbred progenitor strains from which the ILS and ISS were derived, and found that quantitative trait loci that have been mapped for LORR were slightly enriched for DNA variants. Finally, by mapping and quantifying RNA-seq reads from the ILS and ISS to their strain-specific genomes rather than to the reference genome, we found a substantial improvement in a differential expression analysis between the lines. This work will help in identifying and characterizing the DNA sequence variants that contribute to the difference in ethanol sensitivity between the ILS and ISS and will also aid in accurate quantification of RNA-seq data generated from the LXS RIs.     

Prepubertal castration eliminates sex differences in lifespan and growth trajectories in genetically heterogeneous mice

Sex differences in aging and longevity have been widely observed, with females consistently outliving males across human populations. However, the mechanisms driving these disparities remain poorly understood. In this study, we explored the influence of post-pubertal testicular effects on sex differences in aging by prepubertally castrating genetically heterogeneous (UM-HET3) mice, a unique mouse model that emulates human sex differences in age-related mortality. Prepubertal castration eliminated the longevity disparity between sexes by reducing the elevated early- to mid-life mortality rate observed in males and extending their median lifespan to match that of females. Additionally, castration extended the duration of body weight growth and attenuated the inverse correlation between early-age body weight and lifespan in males, aligning their growth trajectories with those of females. Our findings suggest that post-pubertal testicular actions in genetically diverse mice are primarily responsible for sex differences in longevity as well as growth trajectories. These findings offer a foundation for further investigation into the fundamental mechanisms driving sex-specific aging patterns and the development of potential pro-longevity interventions.     

A Bayesian analysis of the effect of selection for growth rate on growth curves in rabbits

Gompertz growth curves were fitted to the data of 137 rabbits from control (C) and selected (S) lines. The animals came from a synthetic rabbit line selected for an increased growth rate. The embryos from generations 3 and 4 were frozen and thawed to be contemporary of rabbits born in generation 10. Group C was the offspring of generations 3 and 4, and group S was the contemporary offspring of generation 10. The animals were weighed individually twice a week during the first four weeks of life, and once a week thereafter, until 20 weeks of age. Subsequently, the males were weighed weekly until 40 weeks of age. The random samples of the posterior distributions of the growth curve parameters were drawn by using Markov Chain Monte Carlo (MCMC) methods. As a consequence of selection, the selected animals were heavier than the C animals throughout the entire growth curve. Adult body weight, estimated as a parameter of the Gompertz curve, was 7% higher in the selected line. The other parameters of the Gompertz curve were scarcely affected by selection. When selected and control growth curves are represented in a metabolic scale, all differences disappear.