First discovery of a primitive coelacanth fin fills a major gap in the evolution of lobed fins and limbs

The fossil record provides unique clues about the primitive pattern of lobed fins, the precursors of digit-bearing limbs. Such information is vital for understanding the evolutionary transition from fish fins to tetrapod limbs, and it guides the choice of model systems for investigating the developmental changes underpinning this event. However, the evolutionary preconditions for tetrapod limbs remain unclear. This uncertainty arises from an outstanding gap in our knowledge of early lobed fins: there are no fossil data that record primitive pectoral fin conditions in coelacanths, one of the three major groups of sarcopterygian (lobe-finned) fishes. A new fossil from the Middle-Late Devonian of Wyoming preserves the first and only example of a primitive coelacanth pectoral fin endoskeleton. The strongly asymmetrical skeleton of this fin corroborates the hypothesis that this is the primitive sarcopterygian pattern, and that this pattern persisted in the closest fish-like relatives of land vertebrates. The new material reveals the specializations of paired fins in the modern coelacanth, as well as in living lungfishes. Consequently, the context in which these might be used to investigate evolutionary and developmental relationships between vertebrate fins and limbs is changed. Our data suggest that primitive actinopterygians, rather than living sarcopterygian fishes and their derived appendages, are the most informative comparators for developmental studies seeking to understand the origin of tetrapod limbs.     

POPULATION AND DEVELOPMENTAL VARIATION IN THE FEATHER TIP

Variation among adults reflects variation in basic developmental processes, such as cell division rate. Partitioning the variation into its developmental components would be a major step in understanding evolutionary constraints, but is far from being achieved for any character. In this paper, we examine population variation in the feather tip, a useful structure to study because the history of development is recorded in the adult form. Our goal is to document the variability, and provide a developmentally based explanation for the level of variation observed. Using feathers collected from chicks of a small warbler, we partition population variation into variation attributed to accidents of development (through a consideration of fluctuating asymmetry), and among- and within-family components. Population variation in the earliest formed part of the feather is high (the coefficient of variation is c. 30%); population variation in later formed parts of the feather is lower. The among-individual and developmental noise components are both reduced in later formed parts, but there are differences in the way the two components are associated among the feather parts. The early and later formed parts are highly integrated at the among-individual level (correlations ≈ 1.0) but not at the developmental noise level (correlations ≈ 0.5). This suggests that at least two basic developmental processes are involved in determining the length of the various feather parts. We review feather development and pattern formation models to demonstrate that at least two developmental processes are indeed involved in feather growth. We show how these processes could interact to achieve the relative invariance in the later formed parts of the feather.     

Latitudinal variation in genetic divergence of populations and the potential for future speciation

The increase in biological diversity with decreasing latitude is widely appreciated but the cause of the pattern is unknown. This pattern reflects latitudinal variation in both the origin of new species (cladogenesis) and the number of species that coexist. Here we address latitudinal variation in species origination, by examining population genetic processes that influence speciation. Previous data suggest a greater number of speciation events at lower latitudes. If speciation events occur more frequently at lower latitudes, we predicted that genetic divergence among populations within species, an important component of cladogenesis, should be greater among lower latitude populations. We tested this prediction using within-species patterns of mtDNA variation across 60 vertebrate species that collectively spanned six continents, two oceans, and 119 degrees latitude. We found greater genetic divergence of populations, controlling for geographic distance, at lower latitudes within species. This pattern remained statistically significant after removing populations that occur in localities previously covered by continental glaciers during the last glaciation. Results suggest that lower latitude populations within species exhibit greater evolutionary independence, increasing the likelihood that mutation, recombination, selection, and/or drift will lead to divergence of traits important for reproductive isolation and speciation. Results are consistent with a greater influence of seasonality, reduced energy, and/or glacial (Milankovitch) cycles acting on higher latitude populations, and represent one of the few tests of predictions of latitudinal variation in speciation rates using population genetic data.     

Osteological conservatism and developmental constraint in the polymorphic 'ring species' Ensatina eschscholtzii (Amphibia: Plethodontidae)

The plethodontid salamander species Ensatina eschscholtzii comprises seven subspecies that are geographically distributed in a ring surrounding California's Central Valley. The subspecies are differentiated primarily on the basis of colour pattern, although there is also significant electrophoretic protein variation both within and among subspecies. The subspecies intergrade around the north end of the valley, whereas at the southern end, two morphologically distinct subspecies meet but do not interbreed. Thus, the species is believed to be at or near speciation. The present study examines osteological variation in Ensatina eschscholtzii using x-radiographs of 436 individuals from 19 localities around the ring-shaped range of the species. In marked contrast to the distinct geographic differentiation in colour pattern variation, skeletal conservatism predominates and the small amounts of variation seen in the limbs and vertebral column show no correlation with geography. Thus, skeletal variation does not further elucidate the status of speciation in E. eschscholtii.
Rare skeletal variants, especially in the limb, follow patterns of variation that implicate developmental processes in constraining skeletal variability. In the digits, variation in the number of phalanges in E. eschscholtzii is congruent with variation produced by mitotic inhibition experiments in the developing axolotl ( Ambystoma mexicanum ) limb. In the mesopodium, the sequence of mineralization (in rare large individuals where mineralization occurs) matches the sequence of prechondrogenic condensation in the developing Ambystoma limb. Although constraints on morphological variability by internal developmental mechanisms can account for the patterns of variation seen among these rare limb variants, the question remains open as to whether developmental processes are responsible for the overall skeletal conservatism seen in E. eschscholtzii.     

The genetics and evo-devo of butterfly wing patterns

Understanding how the spectacular diversity of colour patterns on butterfly wings is shaped by natural selection, and how particular pattern elements are generated, has been the focus of both evolutionary and developmental biologists. The growing field of evolutionary developmental biology has now begun to provide a link between genetic variation and the phenotypes that are produced by developmental processes and that are sorted by natural selection. Butterfly wing patterns are set to become one of the few examples of morphological diversity to be studied successfully at many levels of biological organization, and thus to yield a more complete picture of adaptive morphological evolution.     

Gene genealogies in geographically structured populations.

Population genetics theory has dealt only with the spatial or geographic pattern of degrees of relatedness or genetic similarity separately for each point in time. However, a frequent goal of experimental studies is to infer migration patterns that occurred in the past or over extended periods of time. To fully understand how a present geographic pattern of genetic variation reflects one in the past, it is necessary to build genealogy models that directly relate the two. For the first time, space-time probabilities of identity by descent and coalescence probabilities are formulated and characterized in this article. Formulations for general migration processes are developed and applied to specific types of systems. The results can be used to determine the level of certainty that genes found in present populations are descended from ancient genes in the same population or nearby populations vs. geographically distant populations. Some parameter combinations result in past populations that are quite distant geographically being essentially as likely to contain ancestors of genes at a given population as the past population located at the same place. This has implications for the geographic point of origin of ancestral, "Eve," genes. The results also form the first model for emerging "space-time" molecular genetic data.     

Different genetic programmes within identical bacteria under identical conditions: the phenomenon of bistability greatly modifies our view on bacterial populations

Two different behavioural or developmental patters can operate within a single bacterial population in which all of the cells are exposed to the same environmental conditions. Investigations of single cells using green fluorescent protein reveal that a bacterial population can be composed of two distinct fractions in different physiological states, and that cells can even switch between states. Such behaviour, termed 'bistability', can occur even in exponentially growing populations, in which cells have always been regarded as behaving almost identically and having the same pattern of gene expression. In this issue of Molecular Microbiology, Dubnau and Losick review four examples of such bistable populations found in two different bacterial species, and explain why this behaviour makes sense. These investigations have established the new concept of genetically identical cells that behave differently, which will profoundly change how we view bacterial populations.     

Multivariate phenotypic evolution among island and mainland populations of the ornate day gecko, Phelsuma ornata

Interpopulation variation in morphology, such as that among small island populations, plays a key role in speciation and diversification. There are two approaches to investigating evolution of morphological characters: comparing patterns of trait variances and covariances within and among populations, and testing particular adaptive scenarios. Here, we combine both approaches to infer the role of natural selection in shaping morphological variation in body size, head color pattern, and body shape among 10 populations of a day gecko, Phelsuma ornata, and its close relative, P. inexpectata, in the Mascarene Islands. We find that local populations are morphologically distinct, and that natural selection has likely influenced phenotypic diversification in the group. Lizards on small outer islands tend to be larger than lizards on the mainland of Mauritius. For body shape and head color pattern, comparisons of variation within and among populations reveal that differences among populations for some variables are too great to be explained by neutral processes alone, although we cannot identify the causal agents for this selection. These results reveal that the forces shaping different sets of organismal traits may be distinct, such that a variety of statistical approaches are needed to investigate selection in natural populations.     

Resistance to thermal stress in preadult Drosophila buzzatii: variation among populations and changes in relative resistance across life stages

Resistance to a short term exposure to a high temperature stress was examined in eggs, larvae and pupae of Drosophila buzzfltii from seven localities. Across development, pupae were most resistant, followed by eggs, and then first and third-instar larvae. Variation among populations for resistance to heat stress was significant in all life stages. However, there was much less variation among populations where measured as eggs and pupae than for both first and third instar larvae. Older larvae showed large changes both in viability and developmental time, while exposure of young larvae to heat stress led to a decline in viability without delayed development. Populations that had the shortest developmental time at 25^oC were relatively the most resistant to heat stress as larvae. High relative resistance at one preadult life stage was not necessarily associated with relatively high resistance at another, or with previous measurements of resistance for adults from these populations. Comparison of populations that were more similar in their pattern of change in resistance across development suggested a relationship with the climate of origin. The possibility that developmental variation in the expression of heat shock proteins may cause variation in resistance to thermal stress for different life stages is discussed.     

Geographic variation of caste structure among ant populations

Morphologically distinct worker castes of eusocial insects specialize in different tasks. The relative proportions of these castes and their body sizes represent the demography of a colony that is predicted to vary adaptively with environments. Despite strong theoretical foundations, there has been little empirical evidence for the evolution of colony demography in nature. We show that geographically distinct populations of the ant Pheidole morrisi differ in worker caste ratios and worker body sizes in a manner consistent with microevolutionary divergence. We further show that the developmental mechanism for caste determination accounts for the unique pattern of covariation observed in these two traits. Behavioral data reveal that the frequency of different tasks performed by workers changes in a caste-specific manner when caste ratios are altered and demonstrate the importance of the major caste in colony defense. The population-level variation documented here for P. morrisi colonies supports the predictions of adaptive demography theory and illustrates that developmental mechanisms can play a significant role in shaping the evolution of phenotype at the colony level.     

Nonlinear developmental processes as sources of dominance

Phenotypes are the products of developmental processes whose dynamics are controlled by genes. In many developmental processes there is a nonlinear relationship between genetic variation and phenotypic variation. These nonlinear relationships can result in the emergence of dominance among alleles that control the developmental process. We explore the properties of dominance relationships in a simple developmental system consisting of a diffusion-gradient-threshold mechanism commonly deployed in pattern formation. We show that a single nonlinear process (diffusion) within this integrated mechanism leads to the emergence of dominance in all components of the mechanism. Unlike the situation in metabolic pathways, where new mutations are most likely to be recessive, the structure of the nonlinearities in this developmental mechanism is such that in certain circumstances new mutations are equally likely to be dominant or recessive. Although the dominance we observe in this system is the result of a physiological process, we also find that dominance can evolve by microevolutionary mechanisms and thus are able to reconcile the opposing views of Fisher and Wright on dominance.     

Patterns of intraspecific variation through ontogeny: a case study of the Cretaceous nautilid Eutrephoceras dekayi and modern Nautilus pompilius

The magnitude and ontogenetic patterns of intraspecific variation can provide important insights into the evolution and development of organisms. Understanding the intraspecific variation of organisms is also a key to correctly pursuing studies in major fields of palaeontology. However, intraspecific variation has been largely overlooked in ectocochleate cephalopods, particularly nautilids. Furthermore, little is known regarding the evolutionary pattern. Here, we present morphological data for the Cretaceous nautilid Eutrephoceras dekayi (Morton) and the modern nautilid Nautilus pompilius Linnaeus through ontogeny. The data are used to describe conch morphology and to elucidate the evolutionary patterns of intraspecific variation. We discovered a similar overall pattern of growth trajectories and the presence of morphological changes at hatching and maturity in both taxa. We also found that intraspecific variation is higher in earlier ontogeny than in later ontogeny in both taxa. The high variation in earlier ontogeny may imply increased flexibility in changing the timing of developmental events, which probably played an important role in nautilid evolution. We assume that the decrease in variation in later ontogeny reflects developmental constraints. Lastly, we compared the similarity/dissimilarity of ontogenetic patterns of variation between taxa. Results reveal that the similarity/dissimilarity of the ontogenetic pattern differs between E. dekayi and N. pompilius. We conclude that this shift in the ontogenetic pattern of variation may be rooted in changes in the developmental programme of nautilids through time. We propose that studying ontogenetic patterns of intraspecific variation can provide new insights into the evolution and development of organisms.     

Developmental interactions and the constituents of quantitative variation

Development is the process by which genotypes are transformed into phenotypes. Consequently, development determines the relationship between allelic and phenotypic variation in a population and, therefore, the patterns of quantitative genetic variation and covariation of traits. Understanding the developmental basis of quantitative traits may lead to insights into the origin and evolution of quantitative genetic variation, the evolutionary fate of populations, and, more generally, the relationship between development and evolution. Herein, we assume a hierarchical, modular structure of trait development and consider how epigenetic interactions among modules during ontogeny affect patterns of phenotypic and genetic variation. We explore two developmental models, one in which the epigenetic interactions between modules result in additive effects on character expression and a second model in which these epigenetic interactions produce nonadditive effects. Using a phenotype landscape approach, we show how changes in the developmental processes underlying phenotypic expression can alter the magnitude and pattern of quantitative genetic variation. Additive epigenetic effects influence genetic variances and covariances, but allow trait means to evolve independently of the genetic variances and covariances, so that phenotypic evolution can proceed without changing the genetic covariance structure that determines future evolutionary response. Nonadditive epigenetic effects, however, can lead to evolution of genetic variances and covariances as the mean phenotype evolves. Our model suggests that an understanding of multivariate evolution can be considerably enriched by knowledge of the mechanistic basis of character development.     

Evolution of evolvability in a developmental model

Evolvability, the ability of populations to adapt, can evolve through changes in the mechanisms determining genetic variation and in the processes of development. Here we construct and evolve a simple developmental model in which the pleiotropic effects of genes can evolve. We demonstrate that selection in a changing environment favors a specific pattern of variability, and that this favored pattern maximizes evolvability. Our analysis shows that mutant genotypes with higher evolvability are more likely to increase to fixation. We also show that populations of highly evolvable genotypes are much less likely to be invaded by mutants with lower evolvability, and that this dynamic primarily shapes evolvability. We examine several theoretical objections to the evolution of evolvability in light of this result. We also show that this result is robust to the presence or absence of recombination, and explore how nonrandom environmental change can select for a modular pattern of variability.     

How does adaptation sweep through the genome? Insights from long-term selection experiments

A major goal in evolutionary biology is to understand the origins and fates of adaptive mutations. Natural selection may act to increase the frequency of de novo beneficial mutations, or those already present in the population as standing genetic variation. These beneficial mutations may ultimately reach fixation in a population, or they may stop increasing in frequency once a particular phenotypic state has been achieved. It is not yet well understood how different features of population biology, and/or different environmental circumstances affect these adaptive processes. Experimental evolution is a promising technique for studying the dynamics of beneficial alleles, as populations evolving in the laboratory experience natural selection in a replicated, controlled manner. Whole-genome sequencing, regularly obtained over the course of sustained laboratory selection, could potentially reveal insights into the mutational dynamics that most likely occur in natural populations under similar circumstances. To date, only a few evolution experiments for which whole-genome data are available exist. This review describes results from these resequenced laboratory-selected populations, in systems with and without sexual recombination. In asexual systems, adaptation from new mutations can be studied, and results to date suggest that the complete, unimpeded fixation of these mutations is not always observed. In sexual systems, adaptation from standing genetic variation can be studied, and in the admittedly few examples we have, the complete fixation of standing variants is not always observed. To date, the relative frequency of adaptation from new mutations versus standing variation has not been tested using a single experimental system, but recent studies using Caenorhabditis elegans and Saccharomyces cerevisiae suggest that this a realistic future goal.     

Evidence for rapid evolution of phenology in an invasive grass

Evolutionary dynamics of integrative traits such as phenology are predicted to be critically important to range expansion and invasion success, yet there are few empirical examples of such phenomena. In this study, we used multiple common gardens to examine the evolutionary significance of latitudinal variation in phenology of a widespread invasive species, the Asian short‐day flowering annual grass Microstegium vimineum. In environmentally controlled growth chambers, we grew plants from seeds collected from multiple latitudes across the species' invasive range. Flowering time and biomass were both strongly correlated with the latitude of population origin such that populations collected from more northern latitudes flowered significantly earlier and at lower biomass than populations from southern locations. We suggest that this pattern may be the result of rapid adaptive evolution of phenology over a period of less than one hundred years and that such changes have likely promoted the northward range expansion of this species. We note that possible barriers to gene flow, including bottlenecks and inbreeding, have apparently not forestalled evolutionary processes for this plant. Furthermore, we hypothesize that evolution of phenology may be a widespread and potentially essential process during range expansion for many invasive plant species.     

Plasticity in the timing of physiological development: Physiological heterokairy — What is it, how frequent is it, and does it matter?

The study of developmental sequences of physiological traits could be an important way of placing comparative developmental physiology (CDP) within the research agenda being forged by work on developmental plasticity. Here we focus on the concept of heterokairy defined by Spicer & Burggren in 2003 as changes in the timing of physiological development in an individual. The role of this concept in the future of the CDP is discussed. First we provide an historical perspective of the ideas that have led to the investigation of sequences in CDP. This is followed by a re-examination and clarification of the definition of physiological heterokairy before empirical case studies that (explicitly or implicitly) demonstrate physiological heterokairy are reviewed. We suggest that physiological heterokairy can be demonstrated through a wide range of invertebrate and vertebrate examples. However, care must be taken when inferring that heterokairy as a pattern is always the result of heterokairic processes as there is evidence that physiological heterokairy could result from the altered timing of both homologous or analogous physiological mechanisms. We conclude by discussing the potential link between heterokairy and heterochrony and suggest that the investigation of this link should be a major goal for workers in both CDP and developmental plasticity.