Epistasis and the Genetic Divergence of Photoperiodism between Populations of the Pitcher-Plant Mosquito, Wyeomyia Smithii

Parallel crosses between each of two southern (ancestral) and one northern (derived) population of the pitcher-plant mosquito, Wyeomyia smithii, were made to determine the genetic components of population divergence in critical photoperiod, a phenological trait that measures adaptation to seasonality along a climatic gradient. Joint scaling tests were used to analyze means and variances of first- and second-generation hybrids in order to determine whether nonadditive genetic variance, especially epistatic variance, contributed to divergence in critical photoperiod. In both crosses, digenic epistatic effects were highly significant, indicating that genetic divergence cannot have resulted solely from differences in additively acting loci. For one cross that could be tested directly for such effects, higher order epistasis and/or linkage did not contribute to the divergence of critical photoperiod between the constituent populations.     

Photoperiodism and the photic environment of the pitcher-plant mosquito,Wyeomyia smithii

Summary Wyeomyia smithii Coq. (Diptera: Culicidae) overwinters as a larva in a state of diapause which is initiated, maintained, and terminated by photoperiod. Both in the dawn and in the dusk, diapausing larvae are photoperiodically most sensitive to blue light (390–450 nm) with a shoulder in response in the bluegreen and green (480–540 nm) region of the spectrum. The saturation curves for response to blue light in the dusk has a steeper slope than for response to blue-green and green light in the dusk, suggesting two distinct pigments or pigment complexes underly photoperiodic response in W. smithii.The photic environment of W. smithii during twilight is rich in yellow-green light but sufficient light is available at 390–540 nm to trigger photoperiodic response early during morning civil twilight and to sustain response until late in evening civil twilight. Comparison of action spectra with spectra of available light indicates that the zenith angles of the sun which would result in 50% response are 95°48 and 94°52 in the dawn and dusk, respectively. Using these zenith angles to approximate daylength in nature provides a resonable prediction of development in the field.The flux density of photons necessary to elicit 50% development a 454 nm is about 9×10⁷ photons/cm² s in the dawn and 3×10⁸ photons/cm² s in the dusk. This high degree of sensitivity enables W. smithii to cue to the rapidly changing light intensity which occurs around the nautical-civil twilight transition. At the same time, the chromophore is not likely to be stimulated by the light of the full moon.     

Dissecting Genetic Architecture Underlying Seed Traits in Multiple Environments

The seeds of flowering plants develop from double fertilization and play a vital role in reproduction and supplying human and animal food. The genetic variation of seed traits is influenced by multiple genetic systems, e.g., maternal, embryo, and/or endosperm genomes. Understanding the genetic architecture of seed traits is a major challenge because of this complex mechanism of multiple genetic systems, especially the epistasis within or between different genomes and their interactions with the environment. In this study, a statistical model was proposed for mapping QTL with epistasis and QTL-by-environment (QE) interactions underlying endosperm and embryo traits. Our model integrates the maternal and the offspring genomes into one mapping framework and can accurately analyze maternal additive and dominant effects, endosperm/embryo additive and dominant effects, and epistatic effects of two loci in the same or two different genomes, as well as interaction effects of each genetic component of QTL with environment. Intensive simulations under different sampling strategies, heritabilities, and model parameters were performed to investigate the statistical properties of the model. A set of real cottonseed data was analyzed to demonstrate our methods. A software package, QTLNetwork-Seed-1.0.exe, was developed for QTL analysis of seed traits.     

Metabolic Interrelations Underlying the Physiological and Evolutionary Advantages of Genetic Diversity

Past findings have established how the faster growth, greaterreproductive output and/or longer survival that are associatedwith heterosis and genomic diversity measured as multi-locusheterozygosity stem from slower intensities with which proteinsare renewed and replaced (=protein turnover). Slower turnoverresults in lower energy requirements and reduced metabolic sensitivityto environmental change, representing a mechanistic basis forevolutionary consequences of genetic polymorphism. To determinethe genetic and functional basis of differences in whole-bodyprotein turnover, we have begun to resolve different proteolyticpathways, searching for genetic polymorphisms with a directeffect upon proteolysis, and assessing the metabolic and physiologicalconsequences of those genetic influences in the mussel Mytilusedulis. Our recent work has established the physiological importanceof lysosomal enzymes under normal conditions of basal proteolysis,and shown that associated effects on energy flux may vary accordingto functional differences between separate enzymes. Data arepresented here which compare metabolic consequences of polymorphismin the lysosomal aminopeptidases Lap-1 and Lap-2. Findings establishthat metabolic and phenotypic effects of genetic polymorphismresult directly from genetic variation at the loci coding forthese peptidases, rather than from linked loci. They also illustratethe complexity of interrelations that ultimately influence theevolutionary consequences of genomic diversity, including associatedinfluences of both Lap-1 and Lap-2 on energy requirements andanimal condition. We impress that energy requirements for proteinturnover may represent a functional basis for epistasis, includingassociations whereby advantages of genetic polymorphism aregreatest at loci that code for enzymes acting in both proteincatabolism and energy provision.     

Evolutionary divergence of circadian and photoperiodic phenotypes in the pitcher-plant mosquito, Wyeomyia smithii

For decades, chronobiologists have investigated the relationship between the circadian clock that mediates daily activities and the photoperiodic timer that mediates seasonal activities. The main experiment used to infer a circadian basis for photoperiodic time measurement is the Nanda-Hamner protocol (NH). Herein, the authors compare additive and nonadditive (dominance and epistasis) genetic effects that lead to the divergence of populations of the pitcher-plant mosquito, Wyeomyia smithii, for critical photoperiod (CPP) and amplitude of the rhythmic response to NH for 3 temporal-geographic scales: 1) Over geological time between populations in northern and southern clades, 2) over millennial time between populations within the northern clade, and 3) over generational time between lines selected for long and short CPP from within a single population. The authors show that the pattern of additive, dominance, and epistatic effects depends on the time scale over which populations or lines have diverged. Patterns for genetic differences between populations for CPP and response to NH reveal similarities over geological and millennial time scales but differences over shorter periods of evolution. These results, and the observation that neither the period nor amplitude of the NH rhythm are significantly correlated with CPP among populations, lead the authors to conclude that the rhythmic response to NH has evolved independently of photoperiodic response in populations of W. smithii. The implication is that in this species, genetic modification of the circadian clock has not been the basis for the adaptive modification of photoperiodic time measurement over the climatic gradient of North America.     

Genetic coordination of demography and phenology in the pitcher-plant mosquito,Wyeomyia smithii

Demographic and phenological traits compose the basic elements of an insect's life-history strategy in a seasonal environment. An insect's long-term fitness depends on its ability to exploit favorable conditions, to avoid unfavorable conditions, and to convert from one life style to the other. For the pitcher-plant mosquito, Wyeomyia smithii, we show that genetic variation exists in both development time (a demographic trait) and critical photoperiod (a phenological trait) in six populations spanning much of the species' geographical range. During the northward range expansion of W. smithii in North America, these traits have evolved independently under strong directional and stabilizing selection. The correlated response in critical photoperiod to divergent selection on development time reveals significantly positive genetic correlations in five populations and a negative correlation in one population. The positive correlations form a genetically coordinated phenotype: faster developing individuals use a shorter photoperiodic switch point and are able to exploit the late favorable season; slower developing individuals use a longer photoperiodic switch point and are able to avoid extending development into the unfavorable season. This genetic coordination of demography and phenology has not, however, prevented their independent evolution. We propose that evolutionary flexibility in W. smithii may arise in part from the reorganization of their genetic architecture following repeated founder events during their northward invasion of North America.     

Inference of the Genetic Architecture Underlying BMI and Height with the Use of 20,240 Sibling Pairs

Evidence that complex traits are highly polygenic has been presented by population-based genome-wide association studies (GWASs) through the identification of many significant variants, as well as by family-based de novo sequencing studies indicating that several traits have a large mutational target size. Here, using a third study design, we show results consistent with extreme polygenicity for body mass index (BMI) and height. On a sample of 20,240 siblings (from 9,570 nuclear families), we used a within-family method to obtain narrow-sense heritability estimates of 0.42 (SE = 0.17, p = 0.01) and 0.69 (SE = 0.14, p = 6 × 10⁻⁷) for BMI and height, respectively, after adjusting for covariates. The genomic inflation factors from locus-specific linkage analysis were 1.69 (SE = 0.21, p = 0.04) for BMI and 2.18 (SE = 0.21, p = 2 × 10⁻¹⁰) for height. This inflation is free of confounding and congruent with polygenicity, consistent with observations of ever-increasing genomic-inflation factors from GWASs with large sample sizes, implying that those signals are due to true genetic signals across the genome rather than population stratification. We also demonstrate that the distribution of the observed test statistics is consistent with both rare and common variants underlying a polygenic architecture and that previous reports of linkage signals in complex traits are probably a consequence of polygenic architecture rather than the segregation of variants with large effects. The convergent empirical evidence from GWASs, de novo studies, and within-family segregation implies that family-based sequencing studies for complex traits require very large sample sizes because the effects of causal variants are small on average.     

Evolutionary Connectionism: Algorithmic Principles Underlying the Evolution of Biological Organisation in Evo-Devo,Evo-Eco and Evolutionary Transitions

The mechanisms of variation, selection and inheritance, on which evolution by natural selection depends, are not fixed over evolutionary time. Current evolutionary biology is increasingly focussed on understanding how the evolution of developmental organisations modifies the distribution of phenotypic variation, the evolution of ecological relationships modifies the selective environment, and the evolution of reproductive relationships modifies the heritability of the evolutionary unit. The major transitions in evolution, in particular, involve radical changes in developmental, ecological and reproductive organisations that instantiate variation, selection and inheritance at a higher level of biological organisation. However, current evolutionary theory is poorly equipped to describe how these organisations change over evolutionary time and especially how that results in adaptive complexes at successive scales of organisation (the key problem is that evolution is self-referential, i.e. the products of evolution change the parameters of the evolutionary process). Here we first reinterpret the central open questions in these domains from a perspective that emphasises the common underlying themes. We then synthesise the findings from a developing body of work that is building a new theoretical approach to these questions by converting well-understood theory and results from models of cognitive learning. Specifically, connectionist models of memory and learning demonstrate how simple incremental mechanisms, adjusting the relationships between individually-simple components, can produce organisations that exhibit complex system-level behaviours and improve the adaptive capabilities of the system. We use the term “evolutionary connectionism” to recognise that, by functionally equivalent processes, natural selection acting on the relationships within and between evolutionary entities can result in organisations that produce complex system-level behaviours in evolutionary systems and modify the adaptive capabilities of natural selection over time. We review the evidence supporting the functional equivalences between the domains of learning and of evolution, and discuss the potential for this to resolve conceptual problems in our understanding of the evolution of developmental, ecological and reproductive organisations and, in particular, the major evolutionary transitions.     

Rapid Evolution of Lifespan in a Novel Environment: Sex-Specific Responses and Underlying Genetic Architecture

Animal lifespans can vary substantially among closely related species and even among conspecific populations, but it is often difficult to identify environmental and genetic factors producing such variation. We used experimental evolution to examine how transfer to a novel environment affects adult lifespan and rates of senescence in a seed-feeding beetle. Three replicate lines of Callosobruchus maculatus (F.) were switched to a new host plant (cowpea), and each evolved shorter adult lifespans compared to a line maintained on the ancestral host (mung bean). However, the evolution of lifespan differed between the sexes; female lifespan was reduced by ~11% in all cowpea replicates, whereas male lifespan decreased by an average of only 5.6% and the magnitude of the reduction varied among replicates. Reduced lifespan in lines switched to cowpea mirrored the shorter lifespan observed in a separate population chronically associated with cowpea. We then performed crosses between the mung bean and cowpea lines to estimate the genetic architecture underlying the rapid evolution of a shorter lifespan on cowpea. Dominance (overdominance) contributed substantially to the difference between the cowpea and mung bean lines for female lifespan but not for male lifespan. However, details of the genetic architecture varied among the three replicate crosses, so that the convergent evolution of shorter female lifespan in the different cowpea lines did not arise from identical allelic substitutions. Our study demonstrates that insect lifespan can be predictably modified by a switch to a novel host plant, that both the magnitude of this response and its underlying genetic architecture can be sex-specific, and that convergent evolution of a complex trait such as lifespan can arise from different genetic mechanisms.     

Genetic Architecture Underlying Nascent Speciation—The Evolution of Eurasian Pigs under Domestication

Speciation is a process whereby the evolution of reproductive barriers leads to isolated species. Although many studies have addressed large-effect genetic footprints in the advanced stages of speciation, the genetics of reproductive isolation in nascent stage of speciation remains unclear. Here, we show that pig domestication offers an interesting model for studying the early stages of speciation in great details. Pig breeds have not evolved the large X-effect of hybrid incompatibility commonly observed between “good species.” Instead, deleterious epistatic interactions among multiple autosomal loci are common. These weak Dobzhansky–Muller incompatibilities confer partial hybrid inviability with sex biases in crosses between European and East Asian domestic pigs. The genomic incompatibility is enriched in pathways for angiogenesis, androgen receptor signaling and immunity, with an observation of many highly differentiated cis-regulatory variants. Our study suggests that partial hybrid inviability caused by pervasive but weak interactions among autosomal loci may be a hallmark of nascent speciation in mammals.     

Functional Divergence and Evolutionary Turnover in Mammalian Phosphoproteomes

Protein phosphorylation is a key mechanism to regulate protein functions. However, the contribution of this protein modification to species divergence is still largely unknown. Here, we studied the evolution of mammalian phosphoregulation by comparing the human and mouse phosphoproteomes. We found that 84% of the positions that are phosphorylated in one species or the other are conserved at the residue level. Twenty percent of these conserved sites are phosphorylated in both species. This proportion is 2.5 times more than expected by chance alone, suggesting that purifying selection is preserving phosphoregulation. However, we show that the majority of the sites that are conserved at the residue level are differentially phosphorylated between species. These sites likely result from false-negative identifications due to incomplete experimental coverage, false-positive identifications and non-functional sites. In addition, our results suggest that at least 5% of them are likely to be true differentially phosphorylated sites and may thus contribute to the divergence in phosphorylation networks between mouse and humans and this, despite residue conservation between orthologous proteins. We also showed that evolutionary turnover of phosphosites at adjacent positions (in a distance range of up to 40 amino acids) in human or mouse leads to an over estimation of the divergence in phosphoregulation between these two species. These sites tend to be phosphorylated by the same kinases, supporting the hypothesis that they are functionally redundant. Our results support the hypothesis that the evolutionary turnover of phosphorylation sites contributes to the divergence in phosphorylation profiles while preserving phosphoregulation. Overall, our study provides advanced analyses of mammalian phosphoproteomes and a framework for the study of their contribution to phenotypic evolution.     

Photoperiodism in the cabbage whitefly, Aleyrodes brassicae

ABSTRACT. Reproductive diapause was induced in A. brassicae by short photo-period at 15 and 20°C but was almost prevented at 25°C. The critical photoperiod was LD 153/4: 81/4 at 15°C, giving 60% diapause. Photoperiodic sensitivity was confined to the early immature stages. Food plant quality appeared not to influence the induction or prevention of diapause. Chilling facilitated diapause termination. Overwintering females brought into the laboratory as adults or pupae from the field from September to December took longer before laying their first eggs than females collected in January and February.     

Genetic Variability and Divergence in Grayling, THYMALLUS ARCTICUS

In North America there are two disjunct forms of grayling, Montana and arctic, which have been separated for approximately 75,000 to 100,000 years. Electrophoretic analysis of thirty-six protein loci in these forms has revealed: (1) levels of gene duplication comparable to other salmonids, (2) a level of heterozygosity similar to other salmonids, (3) a fast and a slow evolving set of proteins, and (4) no obvious relationship between genetic variability and enzyme function. The genetic divergence between these populations may warrant subspecific designations for these two forms.     

Reproductive maturation in the pitcher-plant mosquito, Wyeomyia smithii

ABSTRACT. Females of Wyeomyia smithii (Coquillett) mate immediately following adult eclosion. Those from Massachusetts emerge with their ovaries at a more advanced stage of development than those from Florida. Decapitation of teneral females prevented the completion of ovarian maturation among individuals from Florida but not from Massachusetts. Application of a JH analogue to Florida pupae induced precocious ovarian development and compensated for decapitation of adults. Juvenile hormone analogue (Altosid) treatment after decapitation at emergence did not stimulate egg development in Florida females beyond the previtellogenic stage (Stage II). Precocious ovarian maturation apparently results from the action in pupae of JH which mediates an early release of a gonotropic factor from the head.     

Chromosomal polymorphisms in the pitcher-plant mosquito,Wyeomyia smithii

A local population of the pitcher-plant mosquito, Wyeomyia smithii (Diptera: Culicidae, Culicini) in western New York State contains naturally polymorphic salivary gland chromosomes. Maps depicting the proposed standard sequence of bands along each of the three chromosomes are presented. Structural conformations of heterokaryotypes reveal ten paracentric inversions. Four inversions occur in chromosome 1, and three in each of chromosomes 2 and 3. All the inversions are small, occupying 3–17% of the length of their respective chromosomes, and all are located in the terminal 1/5 to 1/2 of a chromosome arm. Three inversions are almost adjacent on chromosome 1. On chromosome 2 one inversion lies completely within another. Three inversions on chromosome 3 partially overlap. The remaining two inversions occur alone, one on chromosome 1 and the other on chromosome 2. Another polymorphism, with no visible alteration of band sequence, produces asynapsis of all but the tip of the left arm of chromosome 1, and shows a significant change in frequency between two successive years. No inversion exhibits a significant seasonal change in frequency, though some fluctuation in frequency was noted in two cases. The rarest inversion in the population exists at a frequency below 0.01, and the two most common inversions at frequencies of 0.44 and 0.52. The average inversion heterozygosity of an individual is between 1.7 and 2.4 based on two different estimation procedures. Heterokaryotypes for several of the inversions were significantly more frequent than they should have been, given binomial expectations. Cytogenetic analysis of W. smithii was deemed particularly desirable because this species has been and continues to be the subject of extensive biometrical-genetic, ecological, and evolutionary investigation.This paper is the seventh in a series on the ecology and evolution of the pitcher-plant mosquito     

Evidence of Adaptive Evolutionary Divergence during Biological Invasion

Rapid phenotypic diversification during biological invasions can either arise by adaptation to alternative environments or by adaptive phenotypic plasticity. Where experimental evidence for adaptive plasticity is common, support for evolutionary diversification is rare. Here, we performed a controlled laboratory experiment using full-sib crosses between ecologically divergent threespine stickleback populations to test for a genetic basis of adaptation. Our populations are from two very different habitats, lake and stream, of a recently invaded range in Switzerland and differ in ecologically relevant morphological traits. We found that in a lake-like food treatment lake fish grow faster than stream fish, resembling the difference among wild type individuals. In contrast, in a stream-like food treatment individuals from both populations grow similarly. Our experimental data suggest that genetically determined diversification has occurred within less than 140 years after the arrival of stickleback in our studied region.