The relative roles of adaptation and phylogeny in determination of larval traits in diversifying anuran lineages

I measured phenotypic traits important to the fitness of larval anurans to assess the relative roles of ancestral trait value and selective regime in determining present-day phenotypes. The positions of 14 species from three taxonomic families and three different habitats in a phenotypic space defined by 19 traits provided measures of taxonomic and ecological similarity. The distribution of phenotypic distances among species revealed that neither taxonomy nor habitat overwhelmingly determined phenotype. There appear to be multiple ways in which anurans can exploit pond types. However, the direction of phenotypic movement was not random from one species to the next. Independent contrasts revealed significant correlations in the evolution of traits that were consistent among lineages. These correlations reflected well-known trade-offs that result from functional relationships among the constituent traits. Although there is no simple pattern in the distribution of mean phenotypes across environments and lineages, the pattern of the evolutionary trajectories that created that distribution is consistent with a predictive theory of multivariate evolution.     

A New Method to Infer Causal Phenotype Networks Using QTL and Phenotypic Information

In the context of genetics and breeding research on multiple phenotypic traits, reconstructing the directional or causal structure between phenotypic traits is a prerequisite for quantifying the effects of genetic interventions on the traits. Current approaches mainly exploit the genetic effects at quantitative trait loci (QTLs) to learn about causal relationships among phenotypic traits. A requirement for using these approaches is that at least one unique QTL has been identified for each trait studied. However, in practice, especially for molecular phenotypes such as metabolites, this prerequisite is often not met due to limited sample sizes, high noise levels and small QTL effects. Here, we present a novel heuristic search algorithm called the QTL+phenotype supervised orientation (QPSO) algorithm to infer causal directions for edges in undirected phenotype networks. The two main advantages of this algorithm are: first, it does not require QTLs for each and every trait; second, it takes into account associated phenotypic interactions in addition to detected QTLs when orienting undirected edges between traits. We evaluate and compare the performance of QPSO with another state-of-the-art approach, the QTL-directed dependency graph (QDG) algorithm. Simulation results show that our method has broader applicability and leads to more accurate overall orientations. We also illustrate our method with a real-life example involving 24 metabolites and a few major QTLs measured on an association panel of 93 tomato cultivars. Matlab source code implementing the proposed algorithm is freely available upon request.     

THE FITNESS OF MANIPULATING PHENOTYPES: IMPLICATIONS FOR STUDIES OF FLUCTUATING ASYMMETRY AND MULTIVARIATE SELECTION

Phenotypic manipulation (or phenotypic engineering) that alters trait distributions provides a way to increase the statistical power of detecting relationships between traits and fitness. Manipulations relying on plastic responses, however, assume a specific relationship between the perturbation and the alteration of the traits when multiple traits are involved. We measured several traits, including condition measured as fluctuating asymmetry, in the ladybird beetle Harmonia axyridis under six different diets to examine how altered environments affected multiple traits and their distributions. Although diet affected fluctuating asymmetry, we found no consistent relationship between degree of asymmetry and other phenotypic measures. As expected, individual traits were altered by our treatments. Contrary to expectation, relationships among traits were not constant among diets. Our results suggest that assumptions about the relationship between condition and trait values, especially fluctuating asymmetry, cannot be made. Further, studies that use manipulated phenotypes to statistically determine the form of selection must first demonstrate that the pattern of the phenotypic correlation matrix is not itself altered by the manipulation. If the phenotypic correlation matrix is not constant, then experimental estimates of selection coefficients may not reflect selection that occurs in the wild.     

Phenotypic plasticity in the developmental integration of morphological trade-offs and secondary sexual trait compensation

Trait exaggeration through sexual selection will tale place alongside other changes in phenotype. Exaggerated morphology might be compensated by parallel changes in traits that support, enhance or facilitate exaggeration: 'secondary sexual trait compensation' (SSTC). Alternatively, exaggeration might be realized at the expense of other traits through morphological trade-offs. For the most part, SSTC has only been examined interspecifically. For these phenomena to be important intraspecifically, the sexual trait must be developmentally integrated with the compensatory or competing trait. We studied developmental integration in two species with different development: the holometabolous beetle Onthophagus taurus and the hemimetabolous earwig Forficula auricularia. Male-dimorphic variation in trait exaggeration was exploited to expose both trade-offs and SSTC. We found evidence for morphological trade-offs in O. taurus, but no F. auricularia, supporting the notion that trade-offs are more likely in closed developmetal systems. However, we found these trade-offs were not limited solely to traits growing close together. Developmental integration of structures involved in SSTC were detected in both species. The developmental integration of SSTC was phenotypically plastic, such that the compensation for relatively larger sexual traits was greater in the exasperated male morphs. Evidence of intraspecific SSTC demands studies of the selective, genetic and developmental architecture of phenotypic integration.     

Survival selection on escape performance and its underlying phenotypic traits: a case of many‐to‐one mapping

Selection often operates not directly on phenotypic traits but on performance which is important as several traits may contribute to a single performance measure (many‐to‐one mapping). Although largely ignored in the context of selection, this asks for studies that link all relevant phenotypes with performance and fitness. In an enclosure experiment, we studied links between phenotypic traits, swimming performance and survival in two Enallagma damselflies. Predatory dragonflies imposed survival selection for increased swimming propensity and speed only in E. annexum; probably E. aspersum was buffered by the former species’ presence. Accordingly, more circular caudal lamellae, structures involved in generating thrust while swimming, were selected for only in E. annexum. Other phenotypic traits that contributed to swimming speed were apparently not under selection, probably because of many‐to‐one mapping (functional redundancy). Our results indicate that not only the phenotypic distributions of syntopic prey organisms but also many‐to‐one mapping should be considered when documenting phenotype–performance–fitness relationships.     

The genetic architecture of immune defense and reproduction in male Bombus terrestris bumblebees

Understanding the architecture of genetic variation, that is the number, effect, location, and interaction, of genes responsible for phenotypic variability in nature is important for the understanding of microevolutionary processes. In this study, we have used a quantitative trait loci (QTL) approach to uncover the genetic architecture of fitness-relevant traits associated with reproduction and immune defense in male Bombus terrestris bumblebees. Three male reproductive investment traits, the number and length of the produced sperm and the size of the accessory glands, were studied. Two branches of the insect innate immune system, the activation of the Phenoloxidase-cascade and the hemolymph's antibacterial activity, were investigated. We found that variation in most of the studied traits is based on a network of minor QTLs and epistatic interactions. Unexpectedly, there was no evidence for phenotypic or genetic trade-offs between the presumably costly investment in immune defense and reproductive effort in this population for the measured traits. In fact, we found a positive correlation, both, in phenotype and genetic architecture for the number of produced sperm and antibacterial activity against an insect pathogen. A major finding for all traits analyzed was that the epistatic interactions accounted for a major proportion of the explained phenotypic variance. Especially for traits involved in immune defense, this pattern highlights the possible role of parasites in the evolution and maintenance of recombination and sexual reproduction.     

Intraspecific trait variation influences physiological performance and fitness in the South Africa shrub genus Protea (Proteaceae)

Background and AimsGlobal plant trait datasets commonly identify trait relationships that are interpreted to reflect fundamental trade-offs associated with plant strategies, but often these trait relationships are not identified when evaluating them at smaller taxonomic and spatial scales. In this study we evaluate trait relationships measured on individual plants for five widespread Protea species in South Africa to determine whether broad-scale patterns of structural trait (e.g. leaf area) and physiological trait (e.g. photosynthetic rates) relationships can be detected within natural populations, and if these traits are themselves related to plant fitness.MethodsWe evaluated the variance structure (i.e. the proportional intraspecific trait variation relative to among-species variation) for nine structural traits and six physiological traits measured in wild populations. We used a multivariate path model to evaluate the relationships between structural traits and physiological traits, and the relationship between these traits and plant size and reproductive effort.Key ResultsWhile intraspecific trait variation is relatively low for structural traits, it accounts for between 50 and 100 % of the variation in physiological traits. Furthermore, we identified few trait associations between any one structural trait and physiological trait, but multivariate regressions revealed clear associations between combinations of structural traits and physiological performance (R² = 0.37–0.64), and almost all traits had detectable associations with plant fitness.ConclusionsIntraspecific variation in structural traits leads to predictable differences in individual-level physiological performance in a multivariate framework, even though the relationship of any particular structural trait to physiological performance may be weak or undetectable. Furthermore, intraspecific variation in both structural and physiological traits leads to differences in plant size and fitness. These results demonstrate the importance of considering measurements of multivariate phenotypes on individual plants when evaluating trait relationships and how trait variation influences predictions of ecological and evolutionary outcomes.     

Gonadotropin hormone modulation of testosterone, immune function, performance, and behavioral trade-offs among male morphs of the lizard Uta stansburiana

Sexual selection predicts that trade-offs maintain trait variation in alternative reproductive strategies. Experiments often focus on testosterone (T), but the gonadotropins follicle-stimulating hormone and luteinizing hormone may provide a clearer understanding of the pleiotropic relationships among traits. We assess the activational role of gonadotropins on T and corticosterone regulation in traits expressed by polymorphic male side-blotched lizards Uta stansburiana. Gonadotropins are found to enhance and suppress multiple physiological, morphological, and behavioral traits independently, as well as indirectly via T, and we demonstrate selective trade-offs between reproduction and survival. The OBY locus, a genetic marker in our model vertebrate mating system, allows characterization of the interaction between genotype and hormone treatment on male traits. Our results suggest that oo, ob, and bb males are near their physiological and behavioral capacity for reproductive success, whereas yy and by males are maintained below their physiological maximum. Both by and yy morphs show trait plasticity, and we demonstrate that gonadotropins are likely proximate effectors that govern not only trait differences between alternative mating strategies but also morph plasticity. Gonadotropins clearly represent an important mechanism maintaining variation in physiological, morphological, and behavioral traits, as well as potentially maintaining the immunosuppression costs of male sexual signals.     

Multi-trait Selection, Adaptation, and Constraints on the Evolution of Burst Swimming Performance

Whole organism performance represents the integration of numerousphysiological, morphological, and behavioral traits. How adaptivechanges in performance evolve therefore requires an understandingof how selection acts on multiple integrated traits. Two approachesthat lend themselves to studying the evolution of performancein natural populations are the use of quantitative geneticsmodels for estimating the strength of selection acting on multiplequantitative traits and ecological genetic comparisons of populationsexhibiting phenotypic differences correlated with environmentalvariation. In both cases, the ultimate goal is to understandhow suites of traits and trade-offs between competing functionsrespond to natural selection. Here we consider how these twocomplimentary approaches can be applied to study the adaptiveevolution of escape performance in fish. We first present anextension of Arnold's (1983) quantitative genetic approach thatexplicitly considers how trade-offs between different componentsof performance interact with the underlying genetics. We proposethat such a model can reveal the conditions under which multipleselection pressures will cause adaptive change in traits thatinfluence more than one component of fitness. We then reviewwork on the Atlantic silversides and Trinidadian guppies astwo case studies where an ecological genetics approach has beensuccessfully applied to evaluate how the evolution of escapeperformance trades-off with other components of fitness. Weconclude with the general lesson that whole organism performanceis embedded in a complex phenotype, and that the net outcomeof selection acting on different aspects of the organism willoften result in a compromise among competing influences.     

High-Altitude Adaptation: Mechanistic Insights from Integrated Genomics and Physiology

Population genomic analyses of high-altitude humans and other vertebrates have identified numerous candidate genes for hypoxia adaptation, and the physiological pathways implicated by such analyses suggest testable hypotheses about underlying mechanisms. Studies of highland natives that integrate genomic data with experimental measures of physiological performance capacities and subordinate traits are revealing associations between genotypes (e.g., hypoxia-inducible factor gene variants) and hypoxia-responsive phenotypes. The subsequent search for causal mechanisms is complicated by the fact that observed genotypic associations with hypoxia-induced phenotypes may reflect second-order consequences of selection-mediated changes in other (unmeasured) traits that are coupled with the focal trait via feedback regulation. Manipulative experiments to decipher circuits of feedback control and patterns of phenotypic integration can help identify causal relationships that underlie observed genotype–phenotype associations. Such experiments are critical for correct inferences about phenotypic targets of selection and mechanisms of adaptation.     

Interrelationships among life-history traits in three California oaks

Life-history traits interact in important ways. Relatively few studies, however, have explored the relationships between life-history traits in long-lived taxa such as trees. We examined patterns of energy allocation to components of reproduction and growth in three species of California oaks (Quercus spp.) using a combination of annual acorn censuses, dendrometer bands to measure radial increment, and litterfall traps. Our results are generally consistent with the hypothesis that energy invested in reproduction detracts from the amount of energy available for growth in these long-lived taxa; i.e., there are trade-offs between these traits. The relationships between reproduction and growth varied substantially among specific trait combinations and tree species, however, and in some cases were in the direction opposite that expected based on the assumption of trade-offs between them. This latter finding appears to be a consequence of the pattern of resource use across years in these long-lived trees contrasting with the expected partitioning of resource use within years in short-lived taxa. Thus, the existence and magnitude of putative trade-offs varied depending on whether the time scale considered was within or across years. Collectively, our results indicate that negative relationships between fundamental life-history traits can be important at multiple levels of modular organization and that energy invested in reproduction can have measurable consequences in terms of the amount of energy available for future reproduction and both current and future growth.     

Biomechanical trade-offs bias rates of evolution in the feeding apparatus of fishes

Morphological diversification does not proceed evenly across the organism. Some body parts tend to evolve at higher rates than others, and these rate biases are often attributed to sexual and natural selection or to genetic constraints. We hypothesized that variation in the rates of morphological evolution among body parts could also be related to the performance consequences of the functional systems that make up the body. Specifically, we tested the widely held expectation that the rate of evolution for a trait is negatively correlated with the strength of biomechanical trade-offs to which it is exposed. We quantified the magnitude of trade-offs acting on the morphological components of three feeding-related functional systems in four radiations of teleost fishes. After accounting for differences in the rates of morphological evolution between radiations, we found that traits that contribute more to performance trade-offs tend to evolve more rapidly, contrary to the prediction. While ecological and genetic factors are known to have strong effects on rates of phenotypic evolution, this study highlights the role of the biomechanical architecture of functional systems in biasing the rates and direction of trait evolution.     

Patterns of genetic variation and covariation in ejaculate traits reveal potential evolutionary constraints in guppies

Ejaculates comprise multiple and potentially interacting traits that determine male fertility and sperm competitiveness. Consequently, selection on these traits is likely to be intense, but the efficacy of selection will depend critically on patterns of genetic variation and covariation underlying their expression. In this study, I provide a prospective quantitative genetic analysis of ejaculate traits in the guppy Poecilia reticulata, a highly promiscuous live-bearing fish. I used a standard paternal half-sibling breeding design to characterize patterns of genetic (co)variation in components of sperm length and in vitro sperm performance. All traits exhibited high levels of phenotypic and additive genetic variation, and in several cases, patterns of genetic variation was consistent with Y-linkage. There were also highly significant negative genetic correlations between the various measures of sperm length and sperm performance. In particular, the length of the sperm's midpiece was strongly, negatively and genetically correlated with sperm's swimming velocity-an important determinant of sperm competitiveness in this and other species. Other components of sperm length, including the flagellum and head, were independently and negatively genetically correlated with the proportion of live sperm in the ejaculate (sperm viability). Whether these relationships represent evolutionary trade-offs depends on the precise relationships between these traits and competitive fertilization rates, which have yet to be fully resolved in this (and indeed most) species. Nevertheless, these prospective analyses point to potential constraints on ejaculate evolution and may explain the high level of phenotypic variability in ejaculate traits in this species.     

Genetic architecture of growth and body composition in unique chicken populations

A resource population was established by crossing one modern broiler sire from a commercial broiler breeder male line with dams from two unrelated highly inbred lines; F1 birds were intercrossed to produce two F2 populations. A variety of phe notypic measurements related to growth, muscling, internal organs, and skeleton were recorded for the F2 populations and contemporary pure inbred and broiler birds. Based on the means and phenotypic distributions of the F2 populations com pared to their parental lines, the effective number of genes affecting each trait and heterosis were estimated and discussed relative to the known genetic selection history for each trait. The results suggest that a high number of genes with small epistatic effects are involved in determining the phenotype for traits that broilers were traditionally selected for, and a lower number of genes with major effects are involved in determining the phenotype for traits related to fitness. The estimated number of genes and the phenotypic distributions of the different traits suggest that a quantitative trait loci (QTL) search might be more effectively applied for traits with a low number of involved genes and a high phenotypic distribution among the F2 birds than for traits that show a lower phenotypic distribution and a high number of genes.     

Phenotypic correlations among fitness and its components in a population of the housefly

An individual's or a population's fitness is the result of a large number of interacting life history traits and the environment. Little information is available on the phenotypic correlations among fitness components and fitness itself, especially outside of Drosophila melanogaster. We also lack detailed information on trade-offs among life history traits. Here we present the relationship between adult progeny production and eight components of fitness, as well as some observed trade-offs between life history traits in the housefly (Musca domestica). We briefly discuss some of the ramifications of these relationships.     

The heritability of inducible defenses in tadpoles

The evolution of plastic traits requires phenotypic trade-offs and heritable traits, yet the latter requirement has received little attention, especially for predator-induced traits. Using a half-sib design, I examined the narrow-sense heritability of predator-induced behaviour, morphology, and life history in larval wood frogs (Rana sylvatica). Many of the traits had significant additive genetic variation in predator (caged Anax longipes) and no-predator environments. Whereas most traits had moderate to high heritability across environments, tail depth exhibited high heritability with predators but low heritability without predators. In addition, several traits had significant heritability for plasticity, suggesting a potential for selection to act on plasticity per se. Genetic correlations confirmed known phenotypic relationships across environments and identified novel relationships within each environment. This appears to be the first investigation of narrow-sense heritabilities for predator-induced traits and confirms that inducible traits previously shown to be under selection also have a genetic basis and should be capable of exhibiting evolutionary responses.     

High-dimensional coexistence of temperate tree species: functional traits, demographic rates, life-history stages, and their physical context

Theoretical models indicate that trade-offs between growth and survival strategies of tree species can lead to coexistence across life history stages (ontogeny) and physical conditions experienced by individuals. There exist predicted physiological mechanisms regulating these trade-offs, such as an investment in leaf characters that may increase survival in stressful environments at the expense of investment in bole or root growth. Confirming these mechanisms, however, requires that potential environmental, ontogenetic, and trait influences are analyzed together. Here, we infer growth and mortality of tree species given size, site, and light characteristics from forest inventory data from Wisconsin to test hypotheses about growth-survival trade-offs given species functional trait values under different ontogenetic and environmental states. A series of regression analyses including traits and rates their interactions with environmental and ontogenetic stages supported the relationships between traits and vital rates expected from the expectations from tree physiology. A combined model including interactions between all variables indicated that relationships between demographic rates and functional traits supports growth-survival trade-offs and their differences across species in high-dimensional niche space. The combined model explained 65% of the variation in tree growth and supports a concept of community coexistence similar to Hutchinson's n-dimensional hypervolume and not a low-dimensional niche model or neutral model.     

Quantitative trait loci mapping of phenotypic plasticity and genotype-environment interactions in plant and insect performance

Community genetic studies generally ignore the plasticity of the functional traits through which the effect is passed from individuals to the associated community. However, the ability of organisms to be phenotypically plastic allows them to rapidly adapt to changing environments and plasticity is commonly observed across all taxa. Owing to the fitness benefits of phenotypic plasticity, evolutionary biologists are interested in its genetic basis, which could explain how phenotypic plasticity is involved in the evolution of species interactions. Two current ideas exist: (i) phenotypic plasticity is caused by environmentally sensitive loci associated with a phenotype; (ii) phenotypic plasticity is caused by regulatory genes that simply influence the plasticity of a phenotype. Here, we designed a quantitative trait loci (QTL) mapping experiment to locate QTL on the barley genome associated with barley performance when the environment varies in the presence of aphids, and the composition of the rhizosphere. We simultaneously mapped aphid performance across variable rhizosphere environments. We mapped main effects, QTL × environment interaction (QTL×E), and phenotypic plasticity (measured as the difference in mean trait values) for barley and aphid performance onto the barley genome using an interval mapping procedure. We found that QTL associated with phenotypic plasticity were co-located with main effect QTL and QTL×E. We also located phenotypic plasticity QTL that were located separately from main effect QTL. These results support both of the current ideas of how phenotypic plasticity is genetically based and provide an initial insight into the functional genetic basis of how phenotypically plastic traits may still be important sources of community genetic effects.     

Trade-off mitigation: a conceptual framework for understanding floral adaptation in multispecies interactions

Explanations of floral adaptation to diverse pollinator faunas have often invoked visitor-mediated trade-offs in which no intermediate, generalized floral phenotype is optimal for pollination success, i.e. fitness valleys are created. In such cases, plant species are expected to specialize on particular groups of flower visitors. Contrary to this expectation, it is commonly observed that flowers interact with various groups of visitors, while at the same time maintaining distinct phenotypes among ecotypes, subspecies, or congeners. This apparent paradox may be due to a gap in our understanding of how visitor-mediated trade-offs could affect floral adaptation. Here we provide a conceptual framework for analysing visitor-mediated trade-offs with the hope of stimulating empirical and theoretical studies to fill this gap. We propose two types of visitor-mediated trade-offs to address negative correlations among fitness contributions of different visitors: visitor-mediated phenotypic trade-offs (phenotypic trade-offs) and visitor-mediated opportunity trade-offs (opportunity trade-offs). Phenotypic trade-offs occur when different groups of visitors impose conflicting selection pressures on a floral trait. By contrast, opportunity trade-offs emerge only when some visitors’ actions (e.g. pollen collection) remove opportunities for fitness contribution by more beneficial visitors. Previous studies have observed disruptive selection due to phenotypic trade-offs less often than expected. In addition to existing explanations, we propose that some flowers have achieved ‘adaptive generalization’ by evolving features to avoid or eliminate the fitness valleys that phenotypic trade-offs tend to produce. The literature suggests a variety of pathways to such ‘trade-off mitigation’. Trade-off mitigation may also evolve as an adaptation to opportunity trade-offs. We argue that active exclusion, or floral specialization, can be viewed as a trade-off mitigation, occurring only when flowers cannot otherwise avoid strong opportunity trade-offs. These considerations suggest that an evolutionary strategy for trade-off mitigation is achieved often by acquiring novel combinations of traits. Thus, phenotypic diversification of flowers through convergent evolution of certain trait combinations may have been enhanced not only through adaptive specialization for particular visitors, but also through adaptive generalization for particular visitor communities. Explorations of how visitor-mediated trade-offs explain the recurrent patterns of floral phenotypes may help reconcile the long-lasting controversy on the validity of pollination syndromes.