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258 results for “metapopulation”
Multitrophic metacommunity dataset, with metapopulation level butterfly data, in addition to predation pressure and floral abundance
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Data from: Characterizing morphological (co)variation using structural equation models: body size, allometric relationships and evolvability in a house sparrow metapopulation
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Code for: A metapopulation model of social group dynamics and disease applied to Yellowstone wolves
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Metapopulation dynamics and foraging plasticity in a highly vagile seabird, the southern rockhopper penguin
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Individual fish infection data from metapopulation epidemics used to calculate resistance, tolerance and competence
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Metapopulation connectivity retains genetic diversity following historical bottleneck in a federally endangered seabird
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Dataset: Corridor quality buffers extinction under extreme droughts in experimental metapopulations
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MetaSqueeze: A spatially-explicit metapopulation model for Banksia hookeriana in south-west Australia
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Stan code from: Simulation modeling reveals the evolutionary role of landscape shape and species dispersal on genetic variation within a metapopulation
Different shapes of landscape boundaries can affect the habitat networks within them and consequently the spatial genetic-patterns of a metapopulation. In this study, we used a mechanistic framework to evaluate the effects of landscape shape, through watershed elongation, on genetic divergence among populations at the metapopulation scale. Empirical genetic data from four, sympatric stream-macroinvertebrates having aerial adults were collected from streams in Japan to determine the roles of species-specific dispersal strategies on metapopulation genetics. Simulation results indicated that watershed elongation allows the formation of river networks with fewer branches and larger topographic constraints. This results in decreased interpopulation connectivity but a lower level of spatial isolation of distal populations (e.g., those found in headwaters) occurring in the landscapes examined. Distal populations had higher genetic divergence when their downstream-biased dispersal (relative to upstream- and/or overland-biased dispersal) was high. This underscores the importance of distal populations influencing genetic divergence at the metapopulation scale for species having downstream-biased dispersal. In turn, lower genetic divergence was observed under watershed elongation when the genetic isolation of distal populations was decreased in such species. This strong association between landscape shape and evolutionary processes highlights the importance of natural, spatial architecture in assessing the effectiveness of conservation and management strategies.
Freshwater zooplankton metapopulations and metacommunities respond differently to environmental and spatial variation data files
<p>We used this data to examine how crustacean zooplankton and rotifer species’ metapopulation genetic structure and metacommunities respond to environmental and spatial variation both within and across four regions of boreal Canada (see Martin et al. in press, Freshwater zooplankton metapopulations and metacommunities respond differently to environmental and spatial variation, Ecology).</p> <p>Whole community zooplankton samples were collected from 113 lakes from four environmentally, geologically, and geographically distinct regions of Québec, Canada. Each lake was sampled once, and the bulk zooplankton samples were sequenced using metabarcoding targeting the cytochrome c oxidase subunit I (COI) mitochondrial gene region. Sequences were clustered to species based on 3% OTUs and within species-variation was captured based on ASVs. Read abundances were then normalized using rarefaction to the lowest library to accommodate differences in sequencing depth across sites. In addition 16 environmental variables plus two spatial variables were used to capture abiotic variation between lakes. The data files include the ASV sequences, OTU and taxonomic assignment, and site variables.</p>
Data: Using environmental DNA and occupancy modeling to estimate rangewide metapopulation dynamics
<p>We demonstrate the power of combining two emergent tools for resolving rangewide metapopulation dynamics. First, we employed environmental DNA (eDNA) surveys to efficiently generate multi-season rangewide site occupancy histories. Second, we developed a novel<i> </i>dynamic, spatial multiscale occupancy model to estimate metapopulation dynamics. The model incorporates spatial relationships, explicitly accounts for non-detection bias and allows direct evaluation of the drivers of extinction and colonization. We applied these tools to examine metapopulation dynamics of endangered tidewater goby, a species endemic to California estuarine habitats. We analyzed rangewide eDNA data from 190 geographically isolated sites (813 total water samples) surveyed from two years (2016 and 2017). Rangewide estimates of the proportion of sites that were occupied varied little between 2016 (0.52) and 2017 (0.51). However, there was evidence of extinction and colonization dynamics. The probability of extinction of an occupied site (0.106) and probability of colonization of an unoccupied site (0.085) were nearly equal. Stability in site occupancy proportions combined with nearly equal rates of extinction and colonization suggests a dynamic equilibrium between the two years surveyed. Assessment of covariate effects revealed that colonization probability increased as the number of occupied neighboring sites increased and as distance between occupied sites decreased. We show that eDNA surveys can rapidly provide a snapshot of a species distribution over a broad geographic range, and when these surveys are paired with occupancy modeling, can uncover metapopulation dynamics and their drivers.</p>
Perturbation drives changing metapopulation dynamics in a top marine predator
Metapopulation theory assumes a balance between local decays/extinctions and local growth/new colonisations. Here we investigate whether recent population declines across part of the UK harbour seal range represent normal metapopulation dynamics or are indicative of perturbations potentially threatening the metapopulation viability, using 20 years of population trends, location tracking data ( n = 380), and UK-wide, multi-generational population genetic data ( n = 269). First, we use microsatellite data to show that two genetic groups previously identified are distinct metapopulations: northern and southern. Then, we characterize the northern metapopulation dynamics in two different periods, before and after the start of regional declines (pre-/peri-perturbation). We identify source–sink dynamics across the northern metapopulation, with two putative source populations apparently supporting three likely sink populations, and a recent metapopulation-wide disruption of migration coincident with the perturbation. The northern metapopulation appears to be in decay, highlighting that changes in local populations can lead to radical alterations in the overall metapopulation's persistence and dynamics.
Spatial connectedness imposes local- and metapopulation-level selection on life history through feedbacks on demography
<p>Dispersal evolution impacts the fluxes of individuals and hence, connectivity in metapopulations. Connectivity is therefore decoupled from the structural connectedness of the patches within the spatial network. Because of demographic feedbacks, local selection also drives the evolution of other life history traits.</p> <p>We investigated how different levels of connectedness affect trait evolution in experimental metapopulations of the two-spotted spider mite<i>. </i>We separated local- and metapopulation-level selection and linked trait divergence to population dynamics.</p>
Data from: Time since disturbance affects colonization dynamics in a metapopulation
1. Disturbances are widespread in nature and can have substantial population-level consequences. Most empirical studies on the effects of disturbance track population recovery within habitat patches, but have an incomplete representation of the recolonization process. Additionally, recent metapopulation models represent post-disturbance colonization with a recovery state or time-lag for disturbed ("focal") patches, thus assuming that recolonization rates are uniform. 2. However, the availability of colonists in neighboring "source" patches can vary, especially in frequently-disturbed landscapes such as fire-managed forests that have a mosaic of patches that differ in successional state and undergo frequent local extinctions. To determine how time since disturbance in both focal and neighboring source patches might affect metapopulations, we studied the effects of time since fire (TSF) on abundances of a specialist palmetto beetle within and between fire management units in Apalachicola National Forest, Florida. 3. We measured beetle abundances at three distances from the shared edge of paired units, with units ranging from 0-64 months since fire and the difference in time since burning for a focal-source pair ranging from 3-58 months. 4. Soon after fire, beetle abundances within management units were highest near the unit edge, but this pattern changed with increasing TSF. Between paired units, the more recently-disturbed ("focal") unit's beetle abundance was positively related to source unit abundance, but the shape of this relationship differed based on focal unit TSF and the units' difference in time since burning. 5. Results suggest that both focal and source habitat history can influence recolonization of recently-disturbed patches and that these effects may persist over years. Thus, when predicting metapopulation dynamics, variation in habitat characteristics should be considered not only for patches receiving colonists, but for patches supplying colonists as well.
Data from: Effect of the landscape matrix on gene flow in a coastal amphibian metapopulation
Functional connectivity is crucial for the persistence of a metapopulation, because migration among subpopulations enables recolonization and counteracts genetic drift, which is especially important in small subpopulations. We studied the degree and drivers of connectivity among occupied patches of a coastal dune metapopulation of the Natterjack Toad (Epidalea calamita Laurenti), on the basis of microsatellite variation. As spatial landscape heterogeneity is expected to influence dispersal and genetic structure, we analyzed which landscape features affect functional connectivity and to what extent. Sixty different landscape resistance scenarios as well as the isolation-by-distance model were compared using two landscape genetics approaches. We identified three subpopulations with unidirectional levels of gene flow among the two most geographically separated subpopulations, while inferred gene flow into the geographically intermediate subpopulation was limited. Urbanization and vegetation height negatively affected connectivity. Low estimates of genetic diversity and effective population size indicate that conservation measures in the smallest and most isolated subpopulation are required.
Data from: Male harassment, female movements, and genetic diversity in a fragmented metapopulation
Interactions with males often alter the short‐term behaviors of reproductive females. Yet, the influence of different internal and external factors, such as sexual conflict, on animal movement and patch dynamics is not well understood. We studied associations between courtship, movements of reproductive females, and genetic diversity in a small, fragmented network of Euphydras editha taylori (Taylor's checkerspot butterfly). In the absence of courtship, female movements (step lengths) were restricted (< 2 m) and tortuous, and females never departed reproductive habitat. However, when courted by males, step lengths increased markedly and movements were straighter (less tortuous). Female habitat departures were associated with interactions between patch identity and courtship. All tracked females remained in reproductive habitat in the smallest patch, whereas 32% of females departed the larger patch (over forest) while eluding courting males. Genotyping (simple sequence repeats ‐ SSRs) suggested low levels of genetic differentiation (Fst ~ 0.02; Analysis of molecular variance p = 0.02) with inter‐patch distances of ≤ 0.3 km. Tests for a recent genetic bottleneck were negative, but heterozygous deficient deviations from Hardy‐Weinberg Equilibrium expectations may indicate a developing bottleneck. Patch‐specific female movement behaviors and the distribution of SSR alleles across the network suggest the possibility of a predominantly unidirectional transfer of reproducing females from the largest to smaller patches, with the smaller patches mostly closed to emigration. Our study suggests short‐lived intraspecific interactions may influence dispersal in unanticipated ways and that understanding these interactions will provide a more holistic view of habitat fragmentation and network functioning.
Data from: Intercolony movement of pre-breeding seabirds over oceanic scales: implications of cryptic age-classes for conservation and metapopulation dynamics
Aim: Demographic linkage between subpopulations plays a critical role in population processes. Metapopulation dynamics, however, remains one of the most poorly understood aspects of population biology. This is especially true for small, pelagic seabirds because their discrete subpopulations are located on offshore islands, separated by vast areas of open ocean, making monitoring logistically challenging. Seabird populations often contain large numbers of immature pre-breeders that may be important for subpopulation connectivity and demography, but are poorly studied. Here we provide evidence for intercolony movement of pre-breeding Leach's storm-petrels Oceanodroma leucorhoa among three colonies spanning the North Atlantic Ocean. We discuss their influence on metapopulation dynamics and the extinction risk of a subpopulation under threat from extreme predation. Location: North Atlantic Ocean Islands (Scotland, Canada & Iceland). Methods: We use a novel application of Bayesian stable isotope mixing models to infer recent movement of pre-breeding birds between three major breeding populations in the North Atlantic. Carbon and nitrogen stable isotope values from breeding birds (central place foragers) sampled at each colony were used as model sources and pre-breeding birds as model mixtures. Results: Of 134 pre-breeding Leach's storm-petrels sampled at three colonies across the North Atlantic, five had isotope mixing model estimates dissimilar (< 25%) to their colony of capture and were instead isotopically similar to another breeding region. Nineteen further pre-breeders had highly mixed signatures (< 50% for the colony of capture), indicating possible recent movement between colonies. Main conclusions: Our findings provide evidence for interpopulation connectivity of pre-breeding Leach's storm-petrels among colonies spanning the North Atlantic. These results highlight the significance of cryptic young age-classes in metapopulation dynamics and the demographic processes. Moreover, they provide us with a better understanding of how one subpopulation remains extant, despite experiencing extreme predation rates.
Data from: Numbers and distribution of the Great Cormorant in Iceland: limitation at the regional and metapopulation level
We studied a metapopulation of great cormorant (Phalacrocorax carbo) in Iceland, using complete aerial censuses of nests in 25 years during 1975–2015. Age composition was estimated in 1998–2014 by ground surveys in September and February. Brood size was estimated from aerial photographs in 2007–2015. Weather, food, breeding habitat, and density were considered as explanatory variables when examining numerical and distributional changes in the cormorant metapopulation. In 1975–1990 total nest numbers changed little, very low numbers about 1992 were followed by an annual increase of 3.5% in 1994–2015. Total nest numbers were positively correlated with estimates of spawning stocks of cod and saithe and inversely related to the subpolar gyre index (SPG‐I). During the increase in 1994–2015, average colony size at first increased and then declined. Habitat use also changed: the proportion of nests on small rocky islets (skerries) at first declined, from 69% to 44% in 1995–2003 and then increased again to about 58% in 2012–2014. Habitat changes were probably a response to changed patterns of human disturbance. Breeding density, as nests per km2 sea <20 m deep, was rather uniform among five defined regions in 1975–1996. Thereafter, densities became much higher in two sheltered regions with kelp forests and in one mostly exposed region. A second exposed region remained low and in the third nest numbers declined markedly. Thus, carrying capacity was higher in sheltered regions where cormorant breeding had historically been depressed by human disturbance. Brood size varied little among regions but declined with the years from about 2.5 to 1.8. The proportion of juveniles in September (fecundity) declined in 1998–2015 from over 0.4 to 0.3 and was inversely correlated with year and nest numbers, if outlier years were excluded, suggesting resource limitation. Survival of juvenile cormorants in September–February was estimated at 0.471 ± 0.066 SE. Commercial fish stocks and climate indices were not correlated with the proportion of juveniles. Annual survival of adults (breeding and nonbreeding) was estimated from nest counts and age composition 1999–2014, as 0.850 ± 0.026 SE and showed no trend in 1998–2014. We conclude that the metapopulation of cormorants in Iceland was resource‐limited at two levels: fecundity at the regional and winter survival at the total level.
Data from: Stay at home aphids: comparative spatial and seasonal metapopulation structure and dynamics of two specialist tansy aphid species studied using microsatellite markers
Two tansy-feeding aphids – Macrosiphoniella tanacetaria (MA) and Metopeurum fuscoviride (ME) – were studied at a small spatial scale in and around Jena (< 80 km2) using polymorphic microsatellite markers. Both species were found in ~ 60% of sites formerly known to harbour the aphids, although generally when they did occur, they occurred singly (MA ~ 50%; ME ~60%) and rarely together on the same plant at the same time (~10%) and then usually only in the early part of the growing season. This difference may be due to quasi-apparent competition effects elicited to ants farming ME aphids, and preferentially actively eliminating or disturbing MA aphids. In terms of population genetics, both aphids showed extreme genetic heterogeneity within a metapopulation structure, ME more than MA, i.e. higher FST values, ~ 0.4 vs. 0.15, respectively, and limited levels of interpopulation gene flow. Subpopulations often deviated from Hardy-Weinberg equilibrium and showed linkage disequilibria, as expected in animals with extended parthenogenetic reproduction, and had positive FIS values for most large samples, suggesting inbreeding, and possibly philopatry, certainly in ME. Hierarchical analysis (allele range and number per locus, analysis of molecular variance and FST) strongly suggested that the plant rather than site governs the level of genetic variation. Bayesian clustering analysis revealed that both species had heterogeneous historical genetic patterning, with K (number of subgroups) ranging from 3-7. Evidence is also provided from isolation by distance (IBD) and private allele analyses, that in MA, the presence of winged autumn males, absent in ME where males are wingless, influences comparative population genetic structuring, such that ME subpopulations are comparatively more inbred and genetically differentiated than MA subpopulations. Lastly, additional spatial arrangement (ALLELES-IN-SPACE) analysis showed that in both species, certain subpopulations were genetically isolated from the remainder, probably due to geographical barriers, including intervening buildings and woods. As such, the biology of these tansy aphids living in semi-natural habitats is very different from many pest aphid species examined within agro-ecosystems and infesting ephemeral crops, since the former seem much more reluctant to fly and hence show contrastingly much higher levels of interpopulation divergence, even at small spatial scales as here investigated. Indeed, the number of genotypic clusters found for tansy aphids found using Bayesian approaches is similar to that for the major pest the peach-potato aphid, Myzus persicae, globally.
Data from: Landscape genetics highlights the role of bank vole metapopulation dynamics in the epidemiology of Puumala hantavirus
Rodent host dynamics and dispersal are thought to be critical for hantavirus epidemiology as they determine pathogen persistence and transmission within and between host populations. We used landscape genetics to investigate how the population dynamics of the bank vole Myodes glareolus, the host of Puumala hantavirus (PUUV), vary with forest fragmentation and influence PUUV epidemiology. We sampled vole populations within the Ardennes, a French PUUV endemic area. We inferred demographic features such as population size, isolation and migration with regard to landscape configuration. We next analysed the influence of M. glareolus population dynamics on PUUV spatial distribution. Our results revealed that the global metapopulation dynamics of bank voles were strongly shaped by landscape features, including suitable patch size and connectivity. Large effective size in forest might therefore contribute to the higher observed levels of PUUV prevalence. By contrast, populations from hedge networks highly suffered from genetic drift and appeared strongly isolated from all other populations. This might result in high probabilities of local extinction for both M. glareolus and PUUV. Besides we detected signatures of asymmetric bank vole migration from forests to hedges. These movements were likely to sustain PUUV in fragmented landscapes. In conclusion, our study provided arguments in favour of source-sink dynamics shaping PUUV persistence and spread in heterogeneous, western European temperate landscapes. It illustrated the potential contribution of landscape genetics to the understanding of the epidemiological processes occurring at this local scale.
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