Limits to local adaptation in six populations of the annual plant Diodia teres

* Local adaptation is common, but tests for adaptive differentiation frequently compare populations from strongly divergent environments, making it unlikely that any influence of stochastic processes such as drift or mutation on local adaptation will be detected. Here, the hypothesis that local adaptation is more likely to develop when the native environments of populations are more distinct than when they are similar was tested. * A reciprocal transplant experiment including two populations from each of three habitats was conducted to determine the pattern of local adaptation. In addition to testing for local adaptation at the population level, the hypothesis was tested that local adaptation is more common between populations from different habitats than between populations from the same habitat. * Local adaptation was not common, but more evidence was found of local adaptation between populations from different habitats than between populations from the same habitat. Two instances of foreign genotype fitness advantage confirm that stochastic processes such as drift can limit local adaptation. * These results are consistent with the hypothesis that stochastic processes can inhibit local adaptation but are more likely to be overwhelmed by natural selection when populations occur in divergent environments.     

Population admixture,biological invasions and the balance between local adaptation and inbreeding depression

When previously isolated populations meet and mix, the resulting admixed population can benefit from several genetic advantages, including increased genetic variation, the creation of novel genotypes and the masking of deleterious mutations. These admixture benefits are thought to play an important role in biological invasions. In contrast, populations in their native range often remain differentiated and frequently suffer from inbreeding depression owing to isolation. While the advantages of admixture are evident for introduced populations that experienced recent bottlenecks or that face novel selection pressures, it is less obvious why native range populations do not similarly benefit from admixture. Here we argue that a temporary loss of local adaptation in recent invaders fundamentally alters the fitness consequences of admixture. In native populations, selection against dilution of the locally adapted gene pool inhibits unconstrained admixture and reinforces population isolation, with some level of inbreeding depression as an expected consequence. We show that admixture is selected against despite significant inbreeding depression because the benefits of local adaptation are greater than the cost of inbreeding. In contrast, introduced populations that have not yet established a pattern of local adaptation can freely reap the benefits of admixture. There can be strong selection for admixture because it instantly lifts the inbreeding depression that had built up in isolated parental populations. Recent work in Silene suggests that reduced inbreeding depression associated with post-introduction admixture may contribute to enhanced fitness of invasive populations. We hypothesize that in locally adapted populations, the benefits of local adaptation are balanced against an inbreeding cost that could develop in part owing to the isolating effect of local adaptation itself. The inbreeding cost can be revealed in admixing populations during recent invasions.     

Molecular diversity of local Norwegian meadow fescue (Festuca pratensis Huds.) populations and Nordic cultivars—consequences for management and utilisation

Genetic diversity and relatedness were studied in 30 Norwegian local populations of meadow fescue (Festuca pratensis Huds.) using amplified fragment length polymorphism (AFLP) markers. The populations were also compared with 13 Nordic meadow fescue cultivars in order to analyse the distribution of variation in local populations and cultivars and to elucidate relationships between local populations and cultivars. Analysis of molecular variance (amova) analysis showed that most of the variation was present within populations and that little variation was found between local populations and cultivars. Separate amova analyses of local populations and cultivars revealed a higher level of variation within registered cultivars than within local populations. A cluster analysis based on corrected average pairwise differences between populations showed that the populations could be divided into three clusters, of which one also contained the cultivars. These results were supported by principal coordinates analysis. The results indicate that the Norwegian meadow fescue has a narrow genetic basis and that the local populations in Norway can be divided into three groups following the most probable routes of introduction of the species into Norway. The inland populations are closely related to the cultivars and have most probably been established as a result of migration from sown meadows. The western and southern populations probably originate from human activity—for example, trade—to the coastal western and northern parts of the country and to the central parts of southern Norway.     

局域种群的Allee效应和集合种群的同步性

从包含Allee效应的局域种群出发,建立了耦合映像格子模型,即集合种群模型.通过分析和计算机模拟表明:(1)当局域种群受到Allee效应强度较大时,集合种群同步灭绝;(2)而当Allee效应强度相对较弱时,通过稳定局域种群动态(减少混沌)使得集合种群发生同步波动,而这种同步波动能够增加集合种群的灭绝风险;(3)斑块间的连接程度对集合种群同步波动的发生有很大的影响,适当的破碎化有利于集合种群的续存.全局迁移和Allee效应结合起来增加了集合种群同步波动的可能,从而增加集合种群的灭绝风险.这些结果对理解同步性的机理、利用同步机理来制定物种保护策略和害虫防治都有重要的意义.     

Apportionment of global human genetic diversity based on craniometrics and skin color

A number of analyses of classical genetic markers and DNA polymorphisms have shown that the majority of human genetic diversity exists within local populations (approximately 85%), with much less among local populations (approximately 5%) or between major geographic regions or "races" (approximately 10%). Previous analysis of craniometric variation (Relethford [1994] Am J Phys Anthropol 95:53-62) found that between 11-14% of global diversity exists among geographic regions, with the remaining diversity existing within regions. The methods used in this earlier paper are extended to a hierarchical partitioning of genetic diversity in quantitative traits, allowing for assessment of diversity among regions, among local populations within regions, and within local populations. These methods are applied to global data on craniometric variation (57 traits) and skin color. Multivariate analysis of craniometric variation shows results similar to those obtained from genetic markers and DNA polymorphisms: roughly 13% of the total diversity is among regions, 6% among local populations within regions, and 81% within local populations. This distribution is concordant with neutral genetic markers. Skin color shows the opposite pattern, with 88% of total variation among regions, 3% among local populations within regions, and 9% within local populations, a pattern shaped by natural selection. The apportionment of genetic diversity in skin color is atypical, and cannot be used for purposes of classification. If racial groups are based on skin color, it appears unlikely that other genetic and quantitative traits will show the same patterns of variation.     

On valuing patches: estimating contributions to metapopulation growth with reverse-time capture-recapture modelling

Metapopulation ecology has historically been rich in theory, yet analytical approaches for inferring demographic relationships among local populations have been few. We show how reverse-time multi-state capture-recapture models can be used to estimate the importance of local recruitment and interpopulation dispersal to metapopulation growth. We use 'contribution metrics' to infer demographic connectedness among eight local populations of banner-tailed kangaroo rats, to assess their demographic closure, and to investigate sources of variation in these contributions. Using a 7 year dataset, we show that: (i) local populations are relatively independent demographically, and contributions to local population growth via dispersal within the system decline with distance; (ii) growth contributions via local survival and recruitment are greater for adults than juveniles, while contributions involving dispersal are greater for juveniles; (iii) central populations rely more on local recruitment and survival than peripheral populations; (iv) contributions involving dispersal are not clearly related to overall metapopulation density; and (v) estimated contributions from outside the system are unexpectedly large. Our analytical framework can classify metapopulations on a continuum between demographic independence and panmixia, detect hidden population growth contributions, and make inference about other population linkage forms, including rescue effects and source-sink structures. Finally, we discuss differences between demographic and genetic population linkage patterns for our system.     

Global analysis of regional differences in craniometric diversity and population substructure.

Estimates of genetic diversity in major geographic regions are frequently made by pooling all individuals into regional aggregates. This method can potentially bias results if there are differences in population substructure within regions, since increased variation among local populations could inflate regional diversity. A preferred method of estimating regional diversity is to compute the mean diversity within local populations. Both methods are applied to a global sample of craniometric data consisting of 57 measurements taken on 1734 crania from 18 local populations in six geographic regions: sub-Saharan Africa, Europe, East Asia, Australasia, Polynesia, and the Americas. Each region is represented by three local populations. Both methods for estimating regional diversity show sub-Saharan Africa to have the highest levels of phenotypic variation, consistent with many genetic studies. Polynesia and the Americas both show high levels of regional diversity when regional aggregates are used, but the lowest mean local population diversity. Regional estimates of F(ST) made using quantitative genetic methods show that both Polynesia and the Americas also have the highest levels of differentiation among local populations, which inflates regional diversity. Regional differences in F(ST) are directly related to the geographic dispersion of samples within each region; higher F(ST) values occur when the local populations are geographically dispersed. These results show that geographic sampling can affect results, and suggest caution in making inferences regarding regional diversity when population substructure is ignored.     

“How Local Is Local?”—A Review of Practical and Conceptual Issues in the Genetics of Restoration

In plant conservation, restoration (the augmentation or reestablishment of an extinct population or community) is a valuable tool to mitigate the loss of habitat. However, restoration efforts can result in the introduction of novel genes and genotypes into populations when plant materials used are not of local origin. This movement is potentially important because many plant species are subdivided into populations that are adapted to local environmental conditions. Here we focus on genetic concerns arising from ongoing restoration efforts, where often little is known about “How local is local?” (i.e., the geographic or environmental scale over which plant species are adapted). We review the major issues regarding gene flow and local adaptation in the restoration of natural plant populations. Finally, we offer some practical, commonsense guidelines for the consideration of genetic structure when restoring natural plant populations.     

A genome scan to detect candidate regions influenced by local natural selection in human populations

As human populations dispersed throughout the world, they were subjected to new selective forces, which must have led to local adaptation via natural selection and hence altered patterns of genetic variation. Yet, there are very few examples known in which such local selection has clearly influenced human genetic variation. A potential approach for detecting local selection is to screen random loci across the genome; those loci that exhibit unusually large genetic distances between human populations are then potential markers of genomic regions under local selection. We investigated this approach by genotyping 332 short tandem repeat (STR) loci in Africans and Europeans and calculating the genetic differentiation for each locus. Patterns of genetic diversity at these loci were consistent with greater variation in Africa and with local selection operating on populations as they moved out of Africa. For 11 loci exhibiting the largest genetic differences, we genotyped an additional STR locus located nearby; the genetic distances for these nearby loci were significantly larger than average. These genomic regions therefore reproducibly exhibit larger genetic distances between populations than the "average" genomic region, consistent with local selection. Our results demonstrate that genome scans are a promising means of identifying candidate regions that have been subjected to local selection.     

Life history traits and abundance can predict local colonisation and extinction rates of freshwater mussels

1. A critical need in conservation biology is to determine which species are most vulnerable to extinction. Freshwater mussels (Bivalvia: Unionacea) are one of the most imperilled faunal groups globally. Freshwater mussel larvae are ectoparasites on fish and depend on the movement of their hosts to maintain connectivity among local populations in a metapopulation. 2. I calculated local colonisation and extinction rates for 16 mussel species from 14 local populations in the Red River drainage of Oklahoma and Texas, U.S. I used general linear models and AIC comparisons to determine which mussel life history traits best predicted local colonisation and extinction rates. 3. Traits related to larval dispersal ability (host infection mode, whether a mussel species was a host generalist or specialist) were the best predictors of local colonisation. 4. Traits related to local population size (regional abundance, time spent brooding) were the best predictors of local extinction. The group of fish species used as hosts by mussels also predicted local extinction and was probably related to habitat fragmentation and host dispersal abilities. 5. Overall, local extinction rates exceeded local colonisation rates, indicating that local populations are becoming increasingly isolated and suffering an ‘extinction debt’. This study demonstrates that analysis of species traits can be used to predict local colonisation and extinction patterns and provide insight into the long‐term persistence of populations.     

Effects of patch number and dispersal patterns on population dynamics and synchrony

In this paper, we examine the effects of patch number and different dispersal patterns on dynamics of local populations and on the level of synchrony between them. Local population renewal is governed by the Ricker model and we also consider asymmetrical dispersal as well as the presence of environmental heterogeneity. Our results show that both population dynamics and the level of synchrony differ markedly between two and a larger number of local populations. For two patches different dispersal rules give very versatile dynamics. However, for a larger number of local populations the dynamics are similar irrespective of the dispersal rule. For example, for the parameter values yielding stable or periodic dynamics in a single population, the dynamics do not change when the patches are coupled with dispersal. High intensity of dispersal does not guarantee synchrony between local populations. The level of synchrony depends also on dispersal rule, the number of local populations, and the intrinsic rate of increase. In our study, the effects of density-independent and density-dependent dispersal rules do not show any consistent difference. The results call for caution when drawing general conclusions from models of only two interacting populations and question the applicability of a large number of theoretical papers dealing with two local populations.     

Effects of experimental population extinction for the spatial population dynamics of the butterfly Parnassius smintheus

While many studies have examined factors potentially impacting the rate of local population extinction, few experimental studies have examined the consequences of extinction for spatial population dynamics. Here we report results from a large‐scale, long‐term experiment examining the effects of local population extinction for the dynamics of surrounding populations. From 2001–2008 we removed all adult butterflies from two large, neighboring populations within a system of 17 subpopulations of the Rocky Mountain Apollo butterfly, Parnassius smintheus. Surrounding populations were monitored using individual, mark–recapture methods. We found that population removal decreased immigration to surrounding populations in proportion to their connectivity to the removed populations. Correspondingly, within‐generation population abundance declined. Despite these effects, we saw little consistent impact between generations. The extinction rates of surrounding populations were unaffected and local population growth was not consistently reduced by the lack of immigration. The broader results show that immigration affects local abundance within generations, but dynamics are mediated by density‐dependence within populations and by broader density‐independent factors acting between generations. The loss of immigrants resulting from extinction has little impact on the persistence of local populations in this system.     

Genetic differentiation and habitat partition of Robertsonian house mouse populations (Mus musculus domesticus) of Tunisia

The karyological analysis of Tunisian populations of house mice revealed the existence of a Robertsonian (Rb) chromosomal race carrying nine pairs of metacentric chromosomes in central Tunisia. Divergence estimates showed that they are genetically differentiated from local all-acrocentric populations and have a reduced level of genic variability. The Rb populations are restricted to urban habitats, whereas all-acrocentric populations occur in rural areas. Contact zones between these two types of habitat yield chromosomally polymorphic populations. Analysis of gene flow indicates that it is reduced and limited to populations bordering the contact areas. The reduced genic variability and patchy distribution exhibited by the Tunisian Rb mice do not agree with results from previous studies of the European Rb populations. Two hypotheses are presented to account for this discrepancy based on local differentiation versus introduction of the Tunisian Rb race.     

Genome architecture enables local adaptation of Atlantic cod despite high connectivity

Adaptation to local conditions is a fundamental process in evolution; however, mechanisms maintaining local adaptation despite high gene flow are still poorly understood. Marine ecosystems provide a wide array of diverse habitats that frequently promote ecological adaptation even in species characterized by strong levels of gene flow. As one example, populations of the marine fish Atlantic cod (Gadus morhua) are highly connected due to immense dispersal capabilities but nevertheless show local adaptation in several key traits. By combining population genomic analyses based on 12K single nucleotide polymorphisms with larval dispersal patterns inferred using a biophysical ocean model, we show that Atlantic cod individuals residing in sheltered estuarine habitats of Scandinavian fjords mainly belong to offshore oceanic populations with considerable connectivity between these diverse ecosystems. Nevertheless, we also find evidence for discrete fjord populations that are genetically differentiated from offshore populations, indicative of local adaptation, the degree of which appears to be influenced by connectivity. Analyses of the genomic architecture reveal a significant overrepresentation of a large ~5 Mb chromosomal rearrangement in fjord cod, previously proposed to comprise genes critical for the survival at low salinities. This suggests that despite considerable connectivity with offshore populations, local adaptation to fjord environments may be enabled by suppression of recombination in the rearranged region. Our study provides new insights into the potential of local adaptation in high gene flow species within fine geographical scales and highlights the importance of genome architecture in analyses of ecological adaptation.     

The common cuckoo Cuculus canorus is not locally adapted to its reed warbler Acrocephalus scirpaceus host

The obligate avian brood parasitic common cuckoo Cuculus canorus comprises different strains of females that specialize on particular host species by laying eggs of a constant type that often mimics those of the host. Whether cuckoos are locally adapted for mimicking populations of the hosts on which they are specialized has never been investigated. In this study, we first explored the possibility of local adaptation in cuckoo egg mimicry over a geographical mosaic of selection exerted by one of its main European hosts, the reed warbler Acrocephalus scirpaceus. Secondly, we investigated whether cuckoos inhabiting reed warbler populations with a broad number of alternative suitable hosts at hand were less locally adapted. Cuckoo eggs showed different degrees of mimicry to different reed warbler populations. However, cuckoo eggs did not match the egg phenotypes of their local host population better than eggs of other host populations, indicating that cuckoos were not locally adapted for mimicry on reed warblers. Interestingly, cuckoos exploiting reed warblers in populations with a relatively larger number of co-occurring cuckoo gentes showed lower than average levels of local adaptation in egg volume. Our results suggest that cuckoo local adaptation might be prevented when different cuckoo populations exploit more or fewer different host species, with gene flow or frequent host switches breaking down local adaptation where many host races co-occur.     

Local and spatial dynamics of a host–parasitoid system in a field experiment

Local extinction and colonisation rates are key factors in host–parasitoid metapopulation theory, but experimental evidence from the field is scarce. We studied the host–parasitoid system consisting of the aphid Metopeurum fuscoviride and its specialist parasitoid Lysiphlebus hirticornis. This system is characterised by a patchy distribution of the host plants (Tanacetum vulgare) and by frequent extinctions of local aphid populations. In a first field experiment, we found that the presence of the parasitoid increases the likelihood of extinction of local host populations (=all aphids living on one plant). In a second field experiment, we manipulated the distance between local host populations. Parasitoid colonisation rate strongly decreased with increasing distance between local host populations. Thus, our results show the importance of parasitoids for local host populations extinction and of distance between local host populations for parasitoid colonisation rate, suggesting the importance of spatial processes for host–parasitoid systems in the field.     

Optimal harvesting strategies for a metapopulation

We consider optimal strategies for harvesting a population that is composed of two local populations. The local populations are connected by the dispersal of juveniles, e.g. larvae, and together form a metapopulation. We model the metapopulation dynamics using coupled difference equations. Dynamic programming is used to determine policies for exploitation that are economically optimal. The metapopulation harvesting theory is applied to a hypothetical fishery and optimal strategies are compared to harvesting strategies that assume the metapopulation is composed either of single unconnected populations or of one well-mixed population. Local populations that have high per capita larval production should be more conservatively harvested than would be predicted using conventional theory. Recognizing the metapopulation structure of a stock and using the appropriate theory can significantly improve economic gains.     

Empirical evidence for source–sink populations: a review on occurrence,assessments and implications

Assessing the role of local populations in a landscape context has become increasingly important in the fields of conservation biology and ecology. A growing number of studies attempt to determine the source–sink status of local populations. As the source–sink concept is commonly used for management decisions in nature conservation, accurate assessment approaches are crucial. Based on a systematic literature review of studies published between 2002 and 2013, we evaluated a priori predictions on methodological and biological factors that may influence the occurrence of source or sink populations. The review yielded 90 assessments from 73 publications that included qualitative and quantitative evidence for either source or sink population(s) for one or multiple species. Overall, sink populations tended to occur more often than source populations. Moreover, the occurrence of source or sink populations differed among taxonomic classes. Sinks were more often found than sources in mammals, while there was a non‐significant trend for the opposite to be true for amphibians. Univariate and multivariate analyses showed that the occurrence of sources was positively related to connectivity of local populations. Our review furthermore highlights that more than 25 years after Pulliam's widely cited publication on ‘sources, sinks, and population regulation’, in‐depth assessments of the source–sink status of populations based on combined consideration of demographic parameters such as fecundity, survival, emigration and immigration are still scarce. To increase our understanding of source–sink systems from ecological, evolutionary and conservation‐related perspectives, we recommend that forthcoming studies on source–sink dynamics should pay more attention to the study design (i.e. connectivity of study populations) and that the assessment of the source–sink status of local populations is based on λ values calculated from demographic rates.