(Co)Variance components and genetic parameter estimates for growth traits in Moghani sheep

Genetic parameters were estimated for birth weight (BW), weaning weight (WW), yearling weight (YW), average daily gain from birth to weaning (ADG1) and average daily gain from weaning to yearling (ADG2) in Moghani sheep. Maximum number of data was 4237 at birth, but only 1389 records at yearling were investigated. The data was collected from 1995 to 2007 at the Breeding Station of Moghani sheep in Jafarabad, Moghan, Iran. (Co)Variance components and genetic parameters were estimated with different models which including direct effects, with and without maternal additive genetic effects as well as maternal permanent environmental effects using restricted maximum likelihood (REML) method. The most appropriate model for each trait was determined based on likelihood ratio tests and Akaike's Information Criterion (AIC). Maternal effects were important only for pre-weaning traits. Direct heritability estimates for BW, ADG1, WW, ADG2 and YW were 0.07, 0.08, 0.09, 0.09 and 0.17, respectively. Fractions of variance due to maternal permanent environmental effects on phenotypic variance were 0.08 for ADG1. Maternal heritability estimates for BW and WW were 0.18 and 0.06, respectively. Multivariate analysis was performed using the most appropriate models obtained in univariate analysis. Direct genetic correlations among studied traits were positive and ranged from 0.37 for BW–ADG2 to 0.85 for ADG1–YW. Maternal genetic correlation estimate between BW and WW was 0.33. Phenotypic and environmental correlation estimates were generally lower than those of genetic correlation. Low direct heritability estimates imply that mass selection for these traits results in slow genetic gain.     

Genetic parameter estimates for pre-weaning performance and reproduction traits in Markhoz goats

Genetic parameters for growth, mortality and reproductive performances of Markhoz goats were estimated from data collected during 1993–2010 at Markhoz goat Performance Testing Station in Sanandaj, Iran. For kid performance traits 3763 records were available for birth weight (BW), 2931 for weaning weight (WW), average daily gain (ADG) and Kleiber ratio (KR) (approximated as ADW/WW^0.75) and 3032 for pre-weaning mortality (PWM). For doe reproductive performance traits there were 2920 records available for litter size at birth (LSB), litter size at weaning (LSW), total litter weight at birth (TLWB) and litter mean weight per kid born (LMWKB), and 2182 for total litter weight at weaned (TLWW) and litter mean weight per kid weaned (LMWKW). Genetic parameters were estimated with univariate and bivariate models using restricted maximum likelihood (REML) procedures. Random effects were explored by fitting additive direct genetic effects, maternal additive genetic effects, maternal permanent environmental effects, the covariance between direct and maternal genetic effects, and common litter effects in different models for pre-weaning traits of kids. Also, in addition to an animal model, sire and threshold models, using a logit link function, were used for analyses of PWM. Models for LSB, LSW, TLWB, TLWW, LMWKB, and LMWKW included direct additive genetic effects, permanent environmental effects due to the animal as well as service sire effects. Estimated direct heritabilities were moderate for pre-weaning traits (0.22 for BW, 0.16 for WW, 0.21 for ADG, and 0.27 for KR and 0.29 for PWM), and low for reproduction traits (0.01 for LSB, 0.01 for LSW, 0.02 for TLWB, 0.03 for TLWW, 0.07 for LMWKB, and 0.06 for LMWKW). The estimates for the maternal additive genetic variance ratios were lower than direct heritability for BW (0.07) and KR (0.04). The estimate for the maternal permanent environmental variance ratios (c²) varied from 0.01 for KR to 0.07 for WW and ADG. The magnitude of common litter variance ratios (l²) was more substantial for BW (0.46) than the PWM (0.19) and KR (0.16). The estimate for the permanent environmental variance due to the animal (c²) ranged from 0.03 for LMWKB to 0.07 for TLWB and LMWKW, whereas service sire effects (s²) ranged from 0.02 to 0.04. The correlation between direct and maternal genetic effects were negative and high for BW (?0.51) and KR (?0.62). The genetic correlations between pre-weaning growth traits were positive and moderate to strong, as were genetic correlations between reproductive traits. Between BW and PWM the correlation was ?0.35. Phenotypic and environmental correlations for all traits were generally lower than genetic correlations.     

Genetic parameters for direct and maternal effects on body weights of Draa goats

Genetic parameters and (co)variance components were estimated for weights at birth and at 30, 90 and 180 days of age for Draa goat maintained at Ouarzazate station over a period of 18 years (1988–2005). Records of 1498 kids, the progeny of 46 sires and 404 dams were used in the study. Analyses were carried out by restricted maximum likelihood. Six different animal models including or ignoring maternal genetic or permanent environmental effects were fitted for all traits. The Model 2 with only permanent environmental maternal effects seemed most suitable. Estimates of direct heritability from this model were 0.16 for birth weight and 0.07, 0.11 and 0.11 for weights at 30, 90 and 180 days, respectively. Maternal heritability estimates varied from 0.00 to 0.24 for all traits according to the model used (Models 4–6). Bivariate analysis by Model 2 was also used to estimate genetic correlations between traits. The estimates of genetic and phenotypic correlations among weights were positive and intermediate to high in value. Despite the low estimated heritabilities of body weight traits of Draa goat, there is a small genetic variability that may be exploited to improve growth performance.     

A multi-marker test based on family data in genome-wide association study

Background

Requirements for successful implementation of multivariate animal threshold models including phenotypic and genotypic information are not known yet. Here simulated horse data were used to investigate the properties of multivariate estimators of genetic parameters for categorical, continuous and molecular genetic data in the context of important radiological health traits using mixed linear-threshold animal models via Gibbs sampling. The simulated pedigree comprised 7 generations and 40000 animals per generation. Additive genetic values, residuals and fixed effects for one continuous trait and liabilities of four binary traits were simulated, resembling situations encountered in the Warmblood horse. Quantitative trait locus (QTL) effects and genetic marker information were simulated for one of the liabilities. Different scenarios with respect to recombination rate between genetic markers and QTL and polymorphism information content of genetic markers were studied. For each scenario ten replicates were sampled from the simulated population, and within each replicate six different datasets differing in number and distribution of animals with trait records and availability of genetic marker information were generated. (Co)Variance components were estimated using a Bayesian mixed linear-threshold animal model via Gibbs sampling. Residual variances were fixed to zero and a proper prior was used for the genetic covariance matrix.

Results

Effective sample sizes (ESS) and biases of genetic parameters differed significantly between datasets. Bias of heritability estimates was -6% to +6% for the continuous trait, -6% to +10% for the binary traits of moderate heritability, and -21% to +25% for the binary traits of low heritability. Additive genetic correlations were mostly underestimated between the continuous trait and binary traits of low heritability, under- or overestimated between the continuous trait and binary traits of moderate heritability, and overestimated between two binary traits. Use of trait information on two subsequent generations of animals increased ESS and reduced bias of parameter estimates more than mere increase of the number of informative animals from one generation. Consideration of genotype information as a fixed effect in the model resulted in overestimation of polygenic heritability of the QTL trait, but increased accuracy of estimated additive genetic correlations of the QTL trait.

Conclusion

Combined use of phenotype and genotype information on parents and offspring will help to identify agonistic and antagonistic genetic correlations between traits of interests, facilitating design of effective multiple trait selection schemes.     

Efficiency of direct selection on quantitative trait loci for a two-trait breeding objective

Selection on known loci affecting quantitative traits (DSQ) was compared to phenotypic selection index for a single and a two-trait selection objective. Two situations were simulated; a single known quantitative locus, and ten identified loci accounting for all the additive genetic variance. Selection efficiency of DSQ relative to traitbased selection was higher for two-trait selection, than was selection on a single trait with the same heritability. The advantage of DSQ was greater when the traits were negatively correlated. Relative selection efficiency (RSE) for a single locus responsible for 0.1 of the genetic variance was 1.11 with heritabilities of 0.45 and 0.2 and zero genetic and phenotypic correlations between the traits. RSE of DSQ for ten known loci was 1.5 to 1.8 in the first 3 generations of selection, but declined in each subsequent generation. With DSQ most loci reached fixation after 7 generations. Response to trait-based selection continued through generation 15 and approached the response obtained with DSQ after 10 generations. The cumulative genetic response after 10 generations of DSQ was only 93% to 97% of the economically optimum genotype because the less favorable allele reached fixation for some loci, generally those with effects in opposite directions on the two traits.     

Development of a selection index to improve market value of cultured Atlantic salmon (Salmo salar).

Genetic parameters were estimated on growth and development traits using analyses of variance and covariance of 42 full-sib families from a select line, 39 full-sib families from a control line of the same strain, and 37 full-sib families from another unselected strain. The traits included percent 1+ smolts, percent sexually immature fish after 1 year in seawater (nongrilse), and fork length measured at intervals throughout the production cycle. The number of fish sampled per family was 30 of 300-1500 for all freshwater traits and 15-60, i.e., all individuals present, for all seawater traits. Heritability estimates of freshwater traits had a broad range (0.15-0.61), but estimates were lower for seawater traits (0.06-0.29). There was a general reduction in heritability estimates for traits measured at increasing ages both in freshwater and seawater. These reductions may in part represent declines of maternal and common environmental effects that inflate heritability estimated from full-sib families. The genetic correlations indicated positive associations between freshwater and seawater growth parameters. However, the correlations decreased with increasing intervals between measurements. A selection index was developed using the estimates of the genetic and phenotypic parameters for three economically important traits: percent 1 + smolts, percent nongrilse, and harvest length. The seawater traits, percent nongrilse, and fork length at 17 months (harvest length) were the most important in the index.     

Egg shell quality in Japanese quail: characteristics,heritabilities and genetic and phenotypic relationships

The objective of the present study was to estimate heritabilities as well as genetic and phenotypic correlations for egg weight, specific gravity, shape index, shell ratio, egg shell strength, egg length, egg width and shell weight in Japanese quail eggs. External egg quality traits were measured on 5864 eggs of 934 female quails from a dam line selected for two generations. Within the Bayesian framework, using Gibbs Sampling algorithm, a multivariate animal model was applied to estimate heritabilities and genetic correlations for external egg quality traits. The heritability estimates for external egg quality traits were moderate to high and ranged from 0.29 to 0.81. The heritability estimates for egg and shell weight of 0.81 and 0.76 were fairly high. The genetic and phenotypic correlations between egg shell strength with specific gravity, shell ratio and shell weight ranging from 0.55 to 0.79 were relatively high. It can be concluded that it is possible to determine egg shell quality using the egg specific gravity values utilizing its high heritability and fairly high positive correlation with most of the egg shell quality traits. As a result, egg specific gravity may be the choice of selection criterion rather than other external egg traits for genetic improvement of egg shell quality in Japanese quails.     

The effect of positive assortative mating on genetic parameters in a simulated beef cattle population

Summary Two simulated data sets, representing random mating and positive assortative mating in a beef cattle population over 10 rounds of mating, were each composed of 100 replicates. Three correlated traits were considered; calving ease (CE), 200 day weight (WW) and postweaning gain (PG). All selection practiced in the simulation was random. Positive assortative mating, which was based on parental WW phenotypic records, increased the progeny additive genetic variance of WW. The absolute values of genetic covariances and correlations between WW with CE and PG were also increased by positive assortative mating. Variances or covariances did not reach their expected equilibrium values due to overlapping generations, low replacement rates and only 10 rounds of mating.The financial assistance of Agriculture Canada and the Natural Sciences and Engineering Research Council of Canada are gratefully acknowledged     

Genetic analysis of ewe productivity traits in Moghani sheep

Genetic and environmental (co)variance components for productivity traits in Moghani sheep were estimated using data from 1344 ewes. The data were collected in the Jafarabad breeding station, north-east of Iran, during a 13-year period (1995-2008). The studied traits were litter size at birth (LSB), litter size at weaning (LSW), litter mean weight per lamb born (LMWLB), litter mean weight per lamb weaned (LMWLW), total litter weight at birth (TLWB) and total litter weight at weaning (TLWW). A model including direct additive genetic effects as well as permanent environmental effects related to repeated records of ewe was the most appropriate model for all the studied traits. Genetic parameters were estimated applying restricted maximum likelihood (REML) procedure. Direct heritability estimate for LSB, LSW, LMWLB, LMWLW, TLWB and TLWW were 0.11, 0.02, 0.15, 0.07, 0.07 and 0.06, respectively. Corresponding values for repeatability estimates were 0.16, 0.19, 0.18, 0.11, 0.13 and 0.09. Genetic correlations between the studied traits ranged from −0.99 for LSB-LMWLB and LSW-LMWLB to 0.99 for LSB-TLWB. Phenotypic and environmental correlation estimates were generally lower than those of genetic ones. Estimates of permanent environmental correlation among traits were positive and medium to high. Although low direct heritabilities were estimated for the reproductive traits, as these traits are of interest then they should be included in a breeding program.     

Quantitative conservation genetics of wild and managed bees

Quantitative genetic traits provide insights into the evolutionary potential of populations, as heritability estimates measure the population’s ability to respond to global changes. Although wild and managed bees are increasingly threatened by the degradation of natural habitats and climate change, risking plant biodiversity and agriculture production, no study has yet performed a systematic review of heritability estimates across the group. Here we help fill this knowledge gap, gathering all available heritability estimates for ants, bees, and wasps, evaluating which factors affect these estimates and assessing the reported genetic correlations between traits. Using a model selection approach to analyze a dataset of more than 800 heritability estimates, we found that heritability is influenced by trait type, with morphological traits exhibiting the highest heritability estimates, and defense and metabolism-related traits showing the lowest estimates. Study system, sociality degree, experimental design, estimation type (narrow or broad-sense heritability), and sample size were not found to affect heritability estimates. Results remained unaltered when correcting for phylogenetic inertia, and when analyzing social bees separately. Genetic correlations between honeybee traits revealed both positive coefficients, usually for traits in the same category, and negative coefficients, suggesting trade-offs among other traits. We discuss these findings and highlight the importance of maintaining genetic variance in fitness-related traits. Our study shows the importance of considering heritability estimates and genetic correlations when designing breeding and conservation programs. We hope this meta-analysis helps identify sustainable breeding approaches and conservation strategies that help safeguard the evolutionary potential of wild and managed bees.     

Selection and genetic (co)variance in bighorn sheep

Genetic theory predicts that directional selection should deplete additive genetic variance for traits closely related to fitness, and may favor the maintenance of alleles with antagonistically pleiotropic effects on fitness-related traits. Trait heritability is therefore expected to decline with the degree of association with fitness, and some genetic correlations between selected traits are expected to be negative. Here we demonstrate a negative relationship between trait heritability and association with lifetime reproductive success in a wild population of bighorn sheep (Ovis canadensis) at Ram Mountain, Alberta, Canada. Lower heritability for fitness-related traits, however, was not wholly a consequence of declining genetic variance, because those traits showed high levels of residual variance. Genetic correlations estimated between pairs of traits with significant heritability were positive. Principal component analyses suggest that positive relationships between morphometric traits constitute the main axis of genetic variation. Trade-offs in the form of negative genetic or phenotypic correlations among the traits we have measured do not appear to constrain the potential for evolution in this population.     

Consistency between marker- and genealogy-based heritability estimates in an experimental stand of Prosopis alba (Leguminosae)

Prosopis represents a valuable forest resource in arid and semiarid regions. Management of promising species requires information about genetic parameters, mainly the heritability (h(2)) of quantitative profitable traits. This parameter is traditionally estimated from progeny tests or half-sib analysis conducted in experimental stands. Such an approach estimates h(2) from the ratio of between-family/total phenotypic variance. These analyses are difficult to apply to natural populations of species with a long life cycle, overlapping generations, and a mixed mating system, without genealogical information. A promising alternative is the use of molecular marker information to infer relatedness between individuals and to estimate h(2) from the regression of phenotypic similarity on inferred relatedness. In the current study we compared h(2) of 13 quantitative traits estimated by these two methods in an experimental stand of P. alba, where genealogical information was available. We inferred pairwise relatedness by Ritland's method using six microsatellite loci. Relatedness and heritability estimates from molecular information were highly correlated to the values obtained from genealogical data. Although Ritland's method yields lower h(2) estimates and tends to overestimate genetic correlations between traits, this approach is useful to predict the expected relative gain of different quantitative traits under selection without genealogical information.     

CONSTANCY OF POPULATION PARAMETERS FOR LIFE-HISTORY AND FLORAL TRAITS IN RAPHANUS SATIVUS L. II. EFFECTS OF PLANTING DENSITY ON PHENOTYPE AND HERITABILITY ESTIMATES

To determine the effect of growing conditions on population parameters in wild radish, (Raphanus sativus L.: Brassicaceae), we replicated maternal and paternal half-sib families of seed across three planting densities in an experimental garden. A nested breeding design performed in the greenhouse produced 1,800 F₁ seeds sown in the garden. We recorded survivorship, measured phenotypic correlations among and estimated narrow-sense and broad-sense heritabilities (h²) of: days to germination, days to flowering, petal area, ovule number/flower, pollen production/flower, and modal pollen grain volume. Survivorship declined with increasing density, but the relative abundances of surviving families did not differ significantly among densities. Seeds in high-density plots germinated significantly faster than seeds sown in medium- or low-density plots, but they flowered significantly later. Plants in high-density plots had fewer ovules per flower than those in the other treatments. Petal area and pollen characters did not differ significantly among densities. Densities differed with respect to the number and sign of significant phenotypic correlations. Analyses of variance were conducted to detect additive genetic variance (V_a) of each trait in each density. At low density, there were significant paternal effects on flowering time and modal pollen grain volume; in medium-density plots, germination time, flowering time and ovule number exhibited significant paternal effects; in high-density plots, only pollen grain volume differed among paternal sibships. The ability to detect maternal effects on progeny phenotype also depended on density. Narrow-sense h² estimates differed markedly among density treatments for germination time, flowering time, ovule number and pollen grain volume. Maternal, paternal and error variance components were estimated for each trait and density to examine the sources of variation in narrow-sense h² across densities. Variance components did not change consistently across densities; each trait behaved differently. To provide qualitative estimates of genetic correlations between characters, correlation coefficients were estimated using paternal family means; these correlations also differed among densities. These results demonstrate that: a) planting density influences the magnitude of maternal and paternal effects on progeny phenotype, and of h² estimates, b) traits differ with respect to the density in which heritability is greatest, c) density affects the variance components that comprise heritability, but each trait behaves differently, and d) the response to selection on any target trait should result in different correlated responses of other traits, depending on density.     

Variance,Inter-Trait Correlation,Heritability, and Marker-Trait Association of Rubber Yield-Related Characteristics in <Emphasis Type="Italic">Taraxacum kok-saghyz</Emphasis>

Rubber dandelion (Taraxacum kok-saghyz or TK) is a potential industrial crop species that can produce high-quality natural rubber in its roots. The present study estimated trait variance, inter-trait correlation, and entry-mean heritability for rubber yield-related traits and analyzed associations between these traits and 42 single-nucleotide polymorphism (SNP) markers. A trial was conducted at three environments to assess a biparental progeny of 66 F₁ full-sibs, in a randomized complete block design (RCBD) with two replicates. Significant correlations, broad ranges of variation, and significant genotypic variance components were identified for five measured phenotypic traits. Moderate broad-sense heritability on an entry-mean heritability estimates (0.51–0.61) were obtained for five rubber yield-related traits based on a 1-year trial. However, the broad-sense heritability in general sense ranged from 0.09 to 0.15 depending on the trait. Two linkage groups were identified. Association analysis identified seven significant marker-trait gene associations, and only one marker was related to two traits. The implications of trait correlations and heritability for selection and improvement are discussed.     

GENETIC AND SOCIAL INHERITANCE OF BODY AND EGG SIZE IN THE BARNACLE GOOSE (BRANTA LEUCOPSIS)

We present heritability estimates for final size of body traits and egg size as well as phenotypic and genetic correlations between body and egg traits in a recently established population of the barnacle goose (Branta leucopsis) in the Baltic area. Body traits as well as egg size were heritable and, hence, could respond evolutionarily to phenotypic selection. Genetic correlations between body size traits were significantly positive and of similar magnitude or higher than the corresponding phenotypic correlations. Heritability estimates for tarsus length obtained from full-sib analyses were higher than those obtained from midoffspring-midparent regressions, and this indicates common environment effects on siblings. Heritabilities for tarsus length obtained from midoffspring-mother regressions were significantly higher than estimates from midoffspring-father regressions. The results suggest that this discrepancy is not caused by maternal effects through egg size, nor by extra-pair fertilizations, but by a socially inherited foraging site fidelity in females.     

Inheritance of size and shape in a natural population of collared flycatchers,Ficedula albicollis

Four external skeletal and three feather dimensions were measured on adult collared flycatchers (Ficedula albicollis) and their adult offspring. By using mid-offspring-midparent regressions, all traits were found to be heritable with an arithmetic mean heritability of 0.46. Heritability estimates from full-sib analyses were about 1.5 times higher (mean 0.67), indicating that variation in traits was affected by shared nest environment among full-sibs. The overall body size as measured by principal component one (PC1) was found to be heritable (h² = 0.40). However, this multivariate measure of heritability was not significant in offspring-father comparison, while highly so in offspring-mother comparison (h² = 0.60). Low offspring-father resemblance was evident also in univariate estimates of heritability. Possible causes of this (extra-pair copulations, maternal effects, sex-linked variance) are discussed. Genetic correlations among seven traits were estimated to be low (mean 0.22), and of similar magnitude or higher than phenotypic correlations (mean 0.18). All genetic correlations were positive. Genetic and phenotypic correlations as well as covariances were fairly similar to each other (r = 0.85 and r = 0.87, respectively). Environmental correlations did not follow the pattern of genetic correlations (r = 0.11), but were more similar to phenotypic correlations (r = 0.60). Given the low genetic correlations and moderate heritabilities, the overall conclusion is that the external morphology of collared flycatchers is largely under additive genetic control and that there is a strong potential for evolutionary change in morphology even under complex multivariate selection.     

Quantitative genetic parameters for wild stream‐living brown trout: heritability and parental effects

Adaptability depends on the presence of additive genetic variance for important traits. Yet few estimates of additive genetic variance and heritability are available for wild populations, particularly so for fishes. Here, we estimate heritability of length‐at‐age for wild‐living brown trout (Salmo trutta), based on long‐term mark‐recapture data and pedigree reconstruction based on large‐scale genotyping at 15 microsatellite loci. We also tested for the presence of maternal and paternal effects using a Bayesian version of the Animal model. Heritability varied between 0.16 and 0.31, with reasonable narrow confidence bands, and the total phenotypic variance increased with age. When introducing dam as an additional random effect (accounting for c. 7% of total phenotypic variance), the level of additive genetic variance and heritability decreased (0.12–0.21). Parental size (both for sires and for dams) positively influenced length‐at‐age for juvenile trout – either through direct parental effects or through genotype‐environment correlations. Length‐at‐age is a complex trait reflecting the effects of a number of physiological, behavioural and ecological processes. Our data show that fitness‐related traits such as length‐at‐age can retain high levels of additive genetic variance even when total phenotypic variance is high.     

Correlated genetic trends for production and welfare traits in a mouse population divergently selected for birth weight environmental variability

The objective of this work was to study the changes that, selecting for environmental variability of birth weight (BW), could bring to other interesting traits in livestock such as: survivability at weaning (SW), litter size (LS) and weaning weight (WW), their variability assessed from standard deviations of LS, standard deviation of WW (SDWW) and also the total litter weight at birth (TLBW) and total litter weight at weaning. Data were registered after eight generations of a divergent selection experiment for BW environmental variability in mice. Genetic parameters and phenotypic and genetic evolution were assessed using linear homoscedastic and heteroscedastic models in which the traits were attributed to the female, except BW and WW that were in some models also attributed to the pup. Genetic correlation between the trait and variability levels was −0.81 for LS and −0.33 for WW. Clear divergent phenotypic trends were observed between lines for LS, WW and SDWW. Although animals were heavier in the high line, TLBW and at weaning was greater in the low line. Despite the negative genetic correlation that was obtained, SDWW was also higher in the high line. Heritabilities were 0.21 and 0.06, respectively, for LS and SW. Both phenotypic and genetic trends showed clear superiority of the low line over the high line for these traits, but inferior for WW. Heteroscedastic model performed similar to the homoscedastic model when there was enough information. Considering LS and survival, the low line was preferred from a welfare point of view, but its superiority from the productivity perspective was not clear. Robustness seemed higher as shown by a low variation and having a benefit to the animal welfare, but this still remains unclear. It was concluded that low variation benefits the welfare of animals.     

Dosage effects on heritability and maternal effects in diploid and triploid Chinook salmon (Oncorhynchus tshawytscha)

Induced triploidy (3N) in salmon results from a blockage of maternal meiosis II, and hence provides a unique opportunity to study dosage effects on phenotypic variance. Chinook salmon families were bred using a paternal half-sib breeding design (62 females and 31 males) and half of each resulting family was treated to induce triploidy. The paired families were used to test for dosage effects (resulting from triploidy) on (1) the distribution and magnitude of phenotypic variation, (2) narrow-sense heritability and (3) maternal effects in fitness-related traits (i.e., survival, size-at-age, relative growth rate and serum lysozyme activity). Quantitative genetic analyses were performed separately for diploid and triploid family groups. Triploidization resulted in significantly higher levels of phenotypic variance and substantial differences in patterns of variance distribution for growth and survival-related traits, although the patterns were reversed for lysozyme activity. Triploids exhibited higher narrow sense heritability values relative to diploid Chinook salmon. However, maternal effects estimates were generally lower in triploids than in diploids. Thus, the dosage effects resulting from adding an extra set of chromosomes to the Chinook salmon genome are primarily additive. Somewhat counterintuitively, however, the relative magnitude of the combined effects of dominance, epistasis and maternal effects is not affected by dosage. Our results indicate that inheritance of fitness-related quantitative traits is profoundly affected by dosage effects associated with induced triploidy, and that triploidization can result in unpredictable performance and fitness outcomes.     

SASQuant: a SAS software program to estimate genetic effects and heritabilities of quantitative traits in populations consisting of 6 related generations

Plant breeders are interested in the analysis of phenotypic data to measure genetic effects and heritability of quantitative traits and predict gain from selection. Measurement of phenotypic values of 6 related generations (parents, F(1), F(2), and backcrosses) allows for the simultaneous analysis of both Mendelian and quantitative traits. In 1997, Liu et al. released a SAS software based program (SASGENE) for the analysis of inheritance and linkage of qualitative traits. We have developed a new program (SASQuant) that estimates gene effects (Hayman's model), genetic variances, heritability, predicted gain from selection (Wright's and Warner's models), and number of effective factors (Wright's, Mather's, and Lande's models). SASQuant makes use of traditional genetic models and allows for their easy application to complex data sets. SASQuant is freely available and is intended for scientists studying quantitative traits in plant populations.