Frédéric Guillaume

Genetics of dispersal

Dispersal is a process of central importance for the ecological and evolutionary dynamics of populations and communities, because of its diverse consequences for gene flow and demography. It is subject to evolutionary change, which begs the question, what is the genetic basis of this potentially complex trait? To address this question, we (i) review the empirical literature on the genetic basis of dispersal, (ii) explore how theoretical investigations of the evolution of dispersal have represented the genetics of dispersal, and (iii) discuss how the genetic basis of dispersal influences theoretical predictions of the evolution of dispersal and potential consequences.

A dynamic eco-evolutionary model predicts slow response of alpine plants to climate warming

Withstanding extinction while facing rapid climate change depends on a species ability to track its ecological niche or to evolve a new one. Current methods that predict climate-driven species range shifts use ecological modelling without eco-evolutionary dynamics. Here we present an eco-evolutionary forecasting framework that combines niche modelling with individual-based demographic and genetic simulations. Applying our approach to four endemic perennial plant species of the Austrian Alps, we show that accounting for eco-evolutionary dynamics when predicting species responses to climate change is crucial. Perennial species persist in unsuitable habitats longer than predicted by niche modelling, causing delayed range losses; however, their evolutionary responses are constrained because long-lived adults produce increasingly maladapted offspring. Decreasing population size due to maladaptation occurs faster than the contraction of the species range, especially for the most abundant species. Monitoring of species local abundance rather than their range may likely better inform on species extinction risks under climate change.

Genomic Quantitative Genetics to Study Evolution in the Wild

Quantitative genetic theory provides a means of estimating the evolutionary potential of natural populations. However, this approach was previously only feasible in systems where the genetic relatedness between individuals could be inferred from pedigrees or experimental crosses. The genomic revolution opened up the possibility of obtaining the realized proportion of genome shared among individuals in natural populations of virtually any species, which could promise (more) accurate estimates of quantitative genetic parameters in virtually any species. Such a genomic quantitative genetics approach relies on fewer assumptions, offers a greater methodological flexibility, and is thus expected to greatly enhance our understanding of evolution in natural populations, for example, in the context of adaptation to environmental change, eco-evolutionary dynamics, and biodiversity conservation.

Can Evolution Supply What Ecology Demands

A simplistic view of the adaptive process pictures a hillside along which a population can climb: when ecological demands change, evolution supplies the variation needed for the population to climb to a new peak. Evolutionary ecologists point out that this simplistic view can be incomplete because the fitness landscape changes dynamically as the population evolves. Geneticists meanwhile have identified complexities relating to the nature of genetic variation and its architecture, and the importance of epigenetic variation is under debate. In this review, we highlight how complexity in both ecological demands and the evolutionary supply influences organisms ability to climb fitness landscapes that themselves change dynamically as evolution proceeds, and encourage new synthetic effort across research disciplines towards ecologically realistic studies of adaptation.

Pedigree-based inbreeding coefficient explains more variation in fitness than heterozygosity at 160 microsatellites in a wild bird population

Although the pedigree-based inbreeding coefficient F predicts the expected proportion of an individuals genome that is identical-by-descent (IBD), heterozygosity at genetic markers captures Mendelian sampling variation and thereby provides an estimate of realized IBD. Realized IBD should hence explain more variation in fitness than their pedigree-based expectations, but how many markers are required to achieve this in practice remains poorly understood. We use extensive pedigree and life-history data from an island population of song sparrows (Melospiza melodia) to show that the number of genetic markers and pedigree depth affected the explanatory power of heterozygosity and F, respectively, but that heterozygosity measured at 160 microsatellites did not explain more variation in fitness than F. This is in contrast with other studies that found heterozygosity based on far fewer markers to explain more variation in fitness than F. Thus, the relative performance of marker- and pedigree-based estimates of IBD depends on the quality of the pedigree, the number, variability and location of the markers employed, and the species-specific recombination landscape, and expectations based on detailed and deep pedigrees remain valuable until we can routinely afford genotyping hundreds of phenotyped wild individuals of genetic non-model species for thousands of genetic markers.

What genomic data can reveal about eco-evolutionary dynamics

Recognition that evolution operates on the same timescale as ecological processes has motivated growing interest in eco-evolutionary dynamics. Nonetheless, generating sufficient data to test predictions about eco-evolutionary dynamics has proved challenging, particularly in natural contexts. Here we argue that genomic data can be integrated into the study of eco-evolutionary dynamics in ways that deepen our understanding of the interplay between ecology and evolution. Specifically, we outline five major questions in the study of eco-evolutionary dynamics for which genomic data may provide answers. Although genomic data alone will not be sufficient to resolve these challenges, integrating genomic data can provide a more mechanistic understanding of the causes of phenotypic change, help elucidate the mechanisms driving eco-evolutionary dynamics, and lead to more accurate evolutionary predictions of eco-evolutionary dynamics in nature.Studying eco-evolutionary dynamics in nature is challenging. In this Perspective, the authors discuss how genomic data can be used to understand the mechanisms behind eco-evolutionary dynamics and lead to evolutionaryxa0and ecological predictions in nature.

What affects the predictability of evolutionary constraints using a G-matrix? The relative effects of modular pleiotropy and mutational correlation

Phenotypic traits do not always respond to selection independently from each other and often show correlated responses to selection. The structure of a genotype‐phenotype map (GP map) determines trait covariation, which involves variation in the degree and strength of the pleiotropic effects of the underlying genes. It is still unclear, and debated, how much of that structure can be deduced from variational properties of quantitative traits that are inferred from their genetic (co) variance matrix (G‐matrix). Here we aim to clarify how the extent of pleiotropy and the correlation among the pleiotropic effects of mutations differentially affect the structure of a G‐matrix and our ability to detect genetic constraints from its eigen decomposition. We show that the eigenvectors of a G‐matrix can be predictive of evolutionary constraints when they map to underlying pleiotropic modules with correlated mutational effects. Without mutational correlation, evolutionary constraints caused by the fitness costs associated with increased pleiotropy are harder to infer from evolutionary metrics based on a G‐matrixs geometric properties because uncorrelated pleiotropic effects do not affect traits genetic correlations. Correlational selection induces much weaker modular partitioning of traits genetic correlations in absence then in presence of underlying modular pleiotropy.

Detecting the Genomic Signal of Polygenic Adaptation and the Role of Epistasis in Evolution

Over the last decade, the genomic revolution has offered the possibility to generate tremendous amounts of data that contain valuable information on the genetic basis of phenotypic traits, such as those linked to human diseases or those that allow for species to adapt to a changing environment. Most ecologically relevant traits are controlled by a large number of genes with small individual effects on trait variation, but that are connected with one another through complex developmental, metabolic and biochemical networks. As a result, it has recently been suggested that most adaptation events in natural populations are reached via correlated changes at multiple genes at a time, for which the name polygenic adaptation has been coined. The current challenge is to develop methods to extract the relevant information from genomic data to detect the signature of polygenic evolutionary change. The symposium entitled “Detecting the Genomic Signal of Polygenic Adaptation and the Role of Epistasis in Evolution” held in 2017 at the University of Zürich aimed at reviewing our current state of knowledge. In this review, we use the talks of the invited speakers to summarize some of the most recent developments in this field.

Life history traits, but not body size, vary systematically along latitudinal gradients on three continents in the widespread yellow dung fly

Large‐scale clinal variation in body size and other life‐history traits is common enough to have stimulated the postulation of several eco‐geographical rules. Whereas some clinal patterns are clearly adaptive, the causes of others remain unclear. We present a comprehensive intraspecific population comparison for the cosmopolitan yellow dung fly Scathophaga stercoraria (Diptera: Scathophagidae) to check for consistent world‐wide patterns. Common garden assessment of various life history traits permitted continental comparison of (clinal) quantitative genetic differentiation (Qst) with putatively neutral genetic differentiation (Fst) derived from field‐caught flies. Latitudinal clines in fly development time, growth rate, and overwintering propensity were consistent among North American, European and Japanese populations. Increased winter dormancy incidence and duration at higher latitude, combined with a faster growth rate and shorter development time, suggest that flies are adaptated to season length more than to temperature. The resulting body size clines, in contrast, were not very consistent; importantly, they were not negative, as expected under seasonal constraints, but flat or even positive clines. Quantitative genetic differentiation QST exceeded neutral molecular variation FST for most traits, suggesting that natural selection plays a consistent role in mediating global dung fly life histories. We conclude that faster growth and development in response to shorter growing seasons at higher latitudes may indirectly counteract expected direct effects of temperature on body‐size, potentially resulting in flat or inconsistent body size clines in nature.

Species' range dynamics affect the evolution of spatial variation in plasticity under environmental change

While clines in environmental tolerance and phenotypic plasticity along a single species’ range are widespread and of special interest in the context of adaptation to environmental changes, we know little about their evolution. Recent empirical findings in ectotherms suggest that processes underlying dynamic species’ ranges can give rise to spatial differences in environmental tolerance and phenotypic plasticity within species. We used individual-based simulations to investigate how plasticity and tolerance evolve in the course of three scenarios of species’ range shifts and range expansions on environmental gradients. We found that regions of a species’ range which experienced a longer history or larger extent of environmental change generally exhibited increased plasticity or tolerance. Such regions may be at the trailing edge when a species is tracking its ecological niche in space (e.g., in a climate change scenario) or at the front edge when a species expands into a new habitat (e.g., in an expansion/invasion scenario). Elevated tolerance and plasticity in the distribution center was detected when asymmetric environmental change (e.g., polar amplification) led to a range expansion. Greater gene flow across the range had a dual effect on plasticity and tolerance clines, with an amplifying effect in niche expansion scenarios (allowing for faster colonization into novel environments), but with a dampening effect in range shift scenarios (favoring spatial translocation of adapted genotypes). However, tolerance and plasticity clines were transient and slowly flattened out after range dynamics because of genetic assimilation. In general, our approach allowed us to investigate the evolution of environmental tolerance and phenotypic plasticity under transient evolutionary dynamics in non-equilibrium situations, which contributes to a better understanding of observed patterns and of how species may respond to future environmental changes. Impact Summary In a variable and changing environment, the ability of a species to cope with a range of selection pressures and a multitude of environmental conditions is critical, both for its’ spatial distribution and its’ long-term persistence. Striking examples of spatial differences in environmental tolerance have been found within species, when single populations differed from each other in their environmental optimum and tolerance breadth, a characteristic that might strongly modify a species’ response to future environmental change. However, we still know little about the evolutionary processes causing these tolerance differences between populations, especially when the differences result from transient evolutionary dynamics in non-equilibrium situations. We demonstrate with individual-based simulations, how spatial differences in environmental tolerance and phenotypic plasticity evolved across a species’ range during three scenarios of range shifts and range expansion. Range dynamics were either driven by environmental change or by the expansion of the ecological niche. The outcome strongly differed between scenarios as tolerance and plasticity were maximized either at the leading edge, at the trailing edge, or in the middle of the species’ range. Spatial tolerance variation resulted from colonization chronologies and histories of environmental change that varied along the range. Subsequent to the range dynamics, the tolerance and plasticity clines slowly leveled out again as result of genetic assimilation such that the described responses are long-lasting, but in the end temporary. These findings help us better understand species’ evolutionary responses during range shifts and range expansion, especially when facing environmental change.