SOLVING THE PARADOX OF STASIS: SQUASHED STABILIZING SELECTION AND THE LIMITS OF DETECTION

Despite the potential for rapid evolution, stasis is commonly observed over geological timescales—the so‐called “paradox of stasis.” This paradox would be resolved if stabilizing selection were common, but stabilizing selection is infrequently detected in natural populations. We hypothesize a simple solution to this apparent disconnect: stabilizing selection is hard to detect empirically once populations have adapted to a fitness peak. To test this hypothesis, we developed an individual‐based model of a population evolving under an invariant stabilizing fitness function. Stabilizing selection on the population was infrequently detected in an “empirical” sampling protocol, because (1) trait variation was low relative to the fitness peak breadth; (2) nonselective deaths masked selection; (3) populations wandered around the fitness peak; and (4) sample sizes were typically too small. Moreover, the addition of negative frequency‐dependent selection further hindered detection by flattening or even dimpling the fitness peak, a phenomenon we term “squashed stabilizing selection.” Our model demonstrates that stabilizing selection provides a plausible resolution to the paradox of stasis despite its infrequent detection in nature. The key reason is that selection “erases its traces”: once populations have adapted to a fitness peak, they are no longer expected to exhibit detectable stabilizing selection.     

LOGISTIC REGRESSION FOR EMPIRICAL STUDIES OF MULTIVARIATE SELECTION

Understanding the mechanics of adaptive evolution requires not only knowing the quantitative genetic bases of the traits of interest but also obtaining accurate measures of the strengths and modes of selection acting on these traits. Most recent empirical studies of multivariate selection have employed multiple linear regression to obtain estimates of the strength of selection. We reconsider the motivation for this approach, paying special attention to the effects of nonnormal traits and fitness measures. We apply an alternative statistical method, logistic regression, to estimate the strength of selection on multiple phenotypic traits. First, we argue that the logistic regression model is more suitable than linear regression for analyzing data from selection studies with dichotomous fitness outcomes. Subsequently, we show that estimates of selection obtained from the logistic regression analyses can be transformed easily to values that directly plug into equations describing adaptive microevolutionary change. Finally, we apply this methodology to two published datasets to demonstrate its utility. Because most statistical packages now provide options to conduct logistic regression analyses, we suggest that this approach should be widely adopted as an analytical tool for empirical studies of multivariate selection.     

CORRECTING FOR SAMPLING BIAS IN QUANTITATIVE MEASURES OF SELECTION WHEN FITNESS IS DISCRETE

We show with a simulation that nonrepresentative sampling of two discrete fitness classes leads to biased estimates of selection. Systematic underestimation occurs if the selected class is overrepresented in the sample and overestimation if the unselected class is overrepresented. The bias is greater the stronger the selection intensity, the smaller the true fraction of individuals favored by selected, and the lower the sample size. We present a simple method that allows a posteriori statistical correction in cases of biased sampling given a separate estimate of the actual class representation, describe its practical implementation, and show that it works.     

用自身次生代谢产物抗性筛选宁南霉素高产菌株

宁南霉素是诺尔斯链霉菌西昌变种产生的一种胞嘧啶核苷肽型新抗生素,它对多种病毒、细菌和真菌引起的作物病害都有较好的防治效果,毒性低、残留量小,无蓄积作用,具有良好的应用前景.然而它的原始菌株 16A—6发酵单位仅 700U/ml~1000U/ml,严重阻碍了它的推广应用.     

SELECTION AND EVOLUTION OF CAUSALLY COVARYING TRAITS

When traits cause variation in fitness, the distribution of phenotype, weighted by fitness, necessarily changes. The degree to which traits cause fitness variation is therefore of central importance to evolutionary biology. Multivariate selection gradients are the main quantity used to describe components of trait‐fitness covariation, but they quantify the direct effects of traits on (relative) fitness, which are not necessarily the total effects of traits on fitness. Despite considerable use in evolutionary ecology, path analytic characterizations of the total effects of traits on fitness have not been formally incorporated into quantitative genetic theory. By formally defining “extended” selection gradients, which are the total effects of traits on fitness, as opposed to the existing definition of selection gradients, a more intuitive scheme for characterizing selection is obtained. Extended selection gradients are distinct quantities, differing from the standard definition of selection gradients not only in the statistical means by which they may be assessed and the assumptions required for their estimation from observational data, but also in their fundamental biological meaning. Like direct selection gradients, extended selection gradients can be combined with genetic inference of multivariate phenotypic variation to provide quantitative prediction of microevolutionary trajectories.     

UNIFICATION OF REGRESSION‐BASED METHODS FOR THE ANALYSIS OF NATURAL SELECTION

Regression analyses are central to characterization of the form and strength of natural selection in nature. Two common analyses that are currently used to characterize selection are (1) least squares–based approximation of the individual relative fitness surface for the purpose of obtaining quantitatively useful selection gradients, and (2) spline‐based estimation of (absolute) fitness functions to obtain flexible inference of the shape of functions by which fitness and phenotype are related. These two sets of methodologies are often implemented in parallel to provide complementary inferences of the form of natural selection. We unify these two analyses, providing a method whereby selection gradients can be obtained for a given observed distribution of phenotype and characterization of a function relating phenotype to fitness. The method allows quantitatively useful selection gradients to be obtained from analyses of selection that adequately model nonnormal distributions of fitness, and provides unification of the two previously separate regression‐based fitness analyses. We demonstrate the method by calculating directional and quadratic selection gradients associated with a smooth regression‐based generalized additive model of the relationship between neonatal survival and the phenotypic traits of gestation length and birth mass in humans.     

SOCIAL CAUSES OF CORRELATIONAL SELECTION AND THE RESOLUTION OF A HERITABLE THROAT COLOR POLYMORPHISM IN A LIZARD

Abstract When selection acts on social or behavioral traits, the fitness of an individual depends on the phenotypes of its competitors. Here, we describe methods and statistical inference for measuring natural selection in small social groups. We measured selection on throat color alleles that arises from microgeographic variation in allele frequency at natal sites of side‐blotched lizards (Uta stansburiana). Previous game‐theoretic analysis indicates that two color morphs of female side‐blotched lizards are engaged in an offspring quantity‐quality game that promotes a density‐and frequency‐dependent cycle. Orange‐throated females are r‐strategists. They lay large clutches of small progeny, which have poor survival at high density, but good survival at low density. In contrast, yellow‐throated females are K‐strategists. They lay small clutches of large progeny, which have good survival at high density. We tested three predictions of the female game: (1) orange progeny should have a fitness advantage at low density; (2) correlational selection acts to couple color alleles and progeny size; and (3) this correlational selection arises from frequency‐dependent selection in which large hatchling size confers an advantage, but only when yellow alleles are rare. We also confirmed the heritability of color, and therefore its genetic basis, by producing progeny from controlled matings. A parsimonious cause of the high heritability is that three alleles (o, b, y) segregate as one genetic factor. We review the physiology of color formation to explain the possible genetic architecture of the throat color trait. Heritability of color was nearly additive in our breeding study, allowing us to compute a genotypic value for each individual and thus predict the frequency of progeny alleles released on 116 plots. Rather than study the fitness of individual progeny, we studied how the fitness of their color alleles varied with allele frequency on plots. We confirmed prediction 1: When orange alleles are present in female progeny, they have higher fitness at low density when compared to other alleles. Even though the difference in egg size of the female morphs was small (0.02 g), it led to knife‐edged survival effects for their progeny depending on local social context. Selection on hatchling survival was not only dependent on color alleles, but on a fitness interaction between color alleles and hatchling size, which confirmed prediction 2. Sire effects, which are not confounded by maternal phenotype, allowed us to resolve the frequency dependence of correlational selection on egg size and color alleles and thereby confirmed prediction 3. Selection favored large size when yellow sire alleles were rare, but small size when they were common. Correlational selection promotes the formation of a self‐reinforcing genetic correlation between the morphs and life‐history variation, which causes selection in the next density and frequency cycle to be exacerbated. We discuss general conditions for the evolution of self‐reinforcing genetic correlations that arise from social selection associated with frequency‐dependent sexual and natural selection.     

FREQUENCY-DEPENDENT SUCCESS OF CHEATERS DURING FORAGING BOUTS MIGHT LIMIT THEIR SPREAD WITHIN COLONIES OF A SOCIALLY POLYMORPHIC SPIDER

Although several studies have demonstrated that frequency-dependent effects can promote the maintenance of cooperative behavior in microbes, experimental evidence of frequency-dependent effects in cooperative animal societies is rare. We staged mixed phenotype feeding bouts in the spider Anelosimus studiosus , which shows a within-population social polymorphism, to determine how phenotype frequency affects the foraging success of the social (cooperative) and asocial (cheater) phenotypes. Foraging performance was inferred from average change in percent mass for the respective phenotypes after staged group foraging events. We then performed a field census of multifemale colonies of A. studiosus to determine the phenotypic composition of naturally occurring colonies. Our data indicate that asocial (i.e., cheater) individuals experience negative frequency-dependent foraging success in staged foraging contests. Asocial individuals outperform social individuals when their representation is low, but lose this competitive advantage as their relative numbers increase. Naturally occurring colonies, on average, contained 58.33% social and 41.67% asocial individuals.     

INTERACTION-INDEPENDENT SEXUAL SELECTION AND THE MECHANISMS OF SEXUAL SELECTION

Darwin identified explicitly two types of sexual selection, male contests (combat and displays) and female choice, and he devoted the overwhelming majority of his examples to traits that influence the outcome of these interactions. Subsequent treatments of sexual selection have emphasized the importance of intra- and intersexual interactions as sources of sexual selection. However, many traits that are important determinants of mating success influence mating success without necessarily affecting the outcome of intra- and intersexual interactions. Here, I argue that traits can be subject to sexual selection even if they do not affect the outcome of intra- and intersexual interactions. I distinguish two types of sexual selection, interaction-independent and interaction-dependent selection, based on whether variance in mating success is the result of trait-dependent outcomes of interactions between conspecifics. I then use this distinction to construct a framework for classifying types of sexual selection that unifies and expands previously proposed frameworks. Finally, I outline several implications that the concept of interaction-independent sexual selection has for the general theory of sexual selection.     

EVOLUTION OF DOMINANCE UNDER FREQUENCY-DEPENDENT INTRASPECIFIC COMPETITION IN AN ASSORTATIVELY MATING POPULATION

We study the evolution of higher levels of dominance as a response to negative frequency-dependent selection. In contrast to previous studies, we focus on the effect of assortative mating on the evolution of dominance under frequency-dependent intraspecific competition. We analyze a two-locus two-allele model, in which the primary locus has a major effect on a quantitative trait that is under a mixture of frequency-independent stabilizing selection, density-dependent selection, and frequency-dependent selection caused by intraspecific competition for a continuum of resources. The second (modifier) locus determines the degree of dominance at the trait level. Additionally, the population mates assortatively with respect to similarities in the ecological trait. Our analysis shows that the parameter region in which dominance can be established decreases if small levels of assortment are introduced. In addition, the degree of dominance that can be established also decreases. In contrast, if assortment is intermediate, sexual selection for extreme types can be established, which leads to evolution of higher levels of dominance than under random mating. For modifiers with large effects, intermediate levels of assortative mating are most favorable for the evolution of dominance. For large modifiers, the speed of fixation can even be higher for intermediate levels of assortative mating than for random mating.     

RESTRICTED MIGRATION AND THE EVOLUTION OF ALTRUISM

A suggestion that limited migration, i.e., population viscosity, should favor the evolution of altruism has been challenged by recent kin selection models explicitly incorporating restricted migration. It is demonstrated that these models compound two distinct elements of population structure, spatial-genotypic variation and density regulation. These two characteristics are often determined by distinct biological processes. While they may be linked under certain circumstances, this is not invariably true. A simple modification of the migration system employed in these studies decouples migration and population regulation thus favoring inter-group selection. At least in some cases, restricted migration will facilitate the evolution of altruism.     

THE EVOLUTION OF FITNESS

In every generation, the mean fitness of populations increases because of natural selection and decreases because of mutations and changes in the environment. The magnitudes of these effects can be measured in two ways: either directly, by comparing the fitnesses of selected and unselected populations, or indirectly, by measuring the additive variance of fitness and making use of the fundamental theorem of natural selection. The available data suggest that the amount by which natural selection increases mean fitness each generation (or degradation decreases mean fitness) will usually be between 0.1% and 30%; more tentatively, it is suggested that values will typically fall between 1% and 10%. These values can be used to set an upper limit of 5%–10% on the genetic advantage of mate choice.     

节丛孢属真菌抗反刍动物消化菌株的体外筛选*

利用食线虫真菌对动物寄生线虫病进行生物防治是寄生虫学当今的研究热点之一。获得能够通过动物消化的食线虫菌株是取得成功的前提。本采用模拟反刍动物瘤胃和真胃的消化道作用,对８４株节丛孢属的食线虫真菌进行了体外抗消化筛选。结果表明：共有２３株通过了２４ｈ瘤胃液的处理,通过率为２７．３８％;１６株同时还通过了４ｈ盐酸－胃蛋白酶的处理,通过率为１９．０４％。     

MULTIYEAR STUDY OF MULTIVARIATE LINEAR AND NONLINEAR PHENOTYPIC SELECTION ON FLORAL TRAITS OF HUMMINGBIRD-POLLINATED SILENE VIRGINICA

Pollination syndromes suggest that convergent evolution of floral traits and trait combinations reflects similar selection pressures. Accordingly, a pattern of selection on floral traits is expected to be consistent with increasing the attraction and pollen transfer of the important pollinator. We measured individual variation in six floral traits and yearly and lifetime total plant seed and fruit production of 758 plants across nine years of study in natural populations of Ruby-Throated Hummingbird-pollinated Silene virginica. The type, strength, and direction of selection gradients were observed by year, and for two cohorts selection was estimated through lifetime maternal fitness. Positive directional selection was detected on floral display height in all years of study and stigma exsertion in all years but one. Significant quadratic and correlational selection gradients were rare. However, a canonical analysis of the gamma matrix indicated nonlinear selection was common; if significant curvature was detected it was convex with one exception. Our analyses demonstrated selection favored trait combinations and the integration of floral features of attraction and pollen transfer efficiency that were consistent with the hummingbird pollination syndrome.     

SPECIES SELECTION AND THE MACROEVOLUTION OF CORAL COLONIALITY AND PHOTOSYMBIOSIS

Differences in the relative diversification rates of species with variant traits are known as species selection. Species selection can produce a macroevolutionary change in the frequencies of traits by changing the relative number of species possessing each trait over time. But species selection is not the only process that can change the frequencies of traits, phyletic microevolution of traits within species and phylogenetic trait evolution among species, the tempo and mode of microevolution can also change trait frequencies. Species selection, phylogenetic, and phyletic processes can all contribute to large‐scale trends, reinforcing or canceling each other out. Even more complex interactions among macroevolutionary processes are possible when multiple covarying traits are involved. Here I present a multilevel macroevolutionary framework that is useful for understanding how macroevolutionary processes interact. It is useful for empirical studies using fossils, molecular phylogenies, or both. I illustrate the framework with the macroevolution of coloniality and photosymbiosis in scleractinian corals using a time‐calibrated molecular phylogeny. I find that standing phylogenetic variation in coloniality and photosymbiosis deflects the direction of macroevolution from the vector of species selection. Variation in these traits constrains species selection and results in a 200 million year macroevolutionary equilibrium.     

ARCHAEOLOGICAL DATA REVEAL SLOW RATES OF EVOLUTION DURING PLANT DOMESTICATION

Domestication is an evolutionary process of species divergence in which morphological and physiological changes result from the cultivation/tending of plant or animal species by a mutualistic partner, most prominently humans. Darwin used domestication as an analogy to evolution by natural selection although there is strong debate on whether this process of species evolution by human association is an appropriate model for evolutionary study. There is a presumption that selection under domestication is strong and most models assume rapid evolution of cultivated species. Using archaeological data for 11 species from 60 archaeological sites, we measure rates of evolution in two plant domestication traits—nonshattering and grain/seed size increase. Contrary to previous assumptions, we find the rates of phenotypic evolution during domestication are slow, and significantly lower or comparable to those observed among wild species subjected to natural selection. Our study indicates that the magnitudes of the rates of evolution during the domestication process, including the strength of selection, may be similar to those measured for wild species. This suggests that domestication may be driven by unconscious selection pressures similar to that observed for natural selection, and the study of the domestication process may indeed prove to be a valid model for the study of evolutionary change.     

SPEED OF ADAPTATION AND GENOMIC FOOTPRINTS OF HOST–PARASITE COEVOLUTION UNDER ARMS RACE AND TRENCH WARFARE DYNAMICS

Coevolution between hosts and their parasites is expected to follow a range of possible dynamics, the two extreme cases being called trench warfare (or Red Queen) and arms races. Long‐term stable polymorphism at the host and parasite coevolving loci is characteristic of trench warfare, and is expected to promote molecular signatures of balancing selection, while the recurrent allele fixation in arms races should generate selective sweeps. We compare these two scenarios using a finite size haploid gene‐for‐gene model that includes both mutation and genetic drift. We first show that trench warfare do not necessarily display larger numbers of coevolutionary cycles per unit of time than arms races. We subsequently perform coalescent simulations under these dynamics to generate sequences at both host and parasite loci. Genomic footprints of recurrent selective sweeps are often found, whereas trench warfare yield signatures of balancing selection only in parasite sequences, and only in a limited parameter space. Our results suggest that deterministic models of coevolution with infinite population sizes do not predict reliably the observed genomic signatures, and it may be best to study parasite rather than host populations to find genomic signatures of coevolution, such as selective sweeps or balancing selection.     

THE SELECTIVE ADVANTAGE OF CRYPSIS IN MICE

The light color of mice that inhabit the sandy dunes of Florida's coast have served as a textbook example of adaptation for nearly a century, despite the fact that the selective advantage of crypsis has never been directly tested or quantified in nature. Using plasticine mouse models of light and dark color, we demonstrate a strong selective advantage for mice that match their local background substrate. Further our data suggest that stabilizing selection maintains color matching within a single habitat, as models that are both lighter and darker than their local environment are selected against. These results provide empirical evidence in support of the hypothesis that visual hunting predators shape color patterning in Peromyscus mice and suggest a mechanism by which selection drives the pronounced color variation among populations.