Browsing by Subject "NATURAL-POPULATIONS"

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  • Radchuk, Viktoriia; Reed, Thomas; Teplitsky, Celine; van de Pol, Martijn; Charmantier, Anne; Hassall, Christopher; Adamik, Peter; Adriaensen, Frank; Ahola, Markus P.; Arcese, Peter; Miguel Aviles, Jesus; Balbontin, Javier; Berg, Karl S.; Borras, Antoni; Burthe, Sarah; Clobert, Jean; Dehnhard, Nina; de Lope, Florentino; Dhondt, Andre A.; Dingemanse, Niels J.; Doi, Hideyuki; Eeva, Tapio; Fickel, Joerns; Filella, Iolanda; Fossoy, Frode; Goodenough, Anne E.; Hall, Stephen J. G.; Hansson, Bengt; Harris, Michael; Hasselquist, Dennis; Hickler, Thomas; Joshi, Jasmin; Kharouba, Heather; Gabriel Martinez, Juan; Mihoub, Jean-Baptiste; Mills, James A.; Molina-Morales, Mercedes; Moksnes, Arne; Ozgul, Arpat; Parejo, Deseada; Pilard, Philippe; Poisbleau, Maud; Rousset, Francois; Roedel, Mark-Oliver; Scott, David; Carlos Senar, Juan; Stefanescu, Constanti; Stokke, Bard G.; Kusano, Tamotsu; Tarka, Maja; Tarwater, Corey E.; Thonicke, Kirsten; Thorley, Jack; Wilting, Andreas; Tryjanowski, Piotr; Merilä, Juha; Sheldon, Ben C.; Moller, Anders Pape; Matthysen, Erik; Janzen, Fredric; Dobson, F. Stephen; Visser, Marcel E.; Beissinger, Steven R.; Courtiol, Alexandre; Kramer-Schadt, Stephanie (2019)
    Biological responses to climate change have been widely documented across taxa and regions, but it remains unclear whether species are maintaining a good match between phenotype and environment, i.e. whether observed trait changes are adaptive. Here we reviewed 10,090 abstracts and extracted data from 71 studies reported in 58 relevant publications, to assess quantitatively whether phenotypic trait changes associated with climate change are adaptive in animals. A meta-analysis focussing on birds, the taxon best represented in our dataset, suggests that global warming has not systematically affected morphological traits, but has advanced phenological traits. We demonstrate that these advances are adaptive for some species, but imperfect as evidenced by the observed consistent selection for earlier timing. Application of a theoretical model indicates that the evolutionary load imposed by incomplete adaptive responses to ongoing climate change may already be threatening the persistence of species.
  • Reza Ghanavi, Hamid; Twort, Victoria Gwendoline; Duplouy, Anne (2021)
    Models estimate that up to 80% of all butterfly and moth species host vertically transmitted endosymbiotic microorganisms, which can affect the host fitness, metabolism, reproduction, population dynamics, and genetic diversity, among others. The supporting empirical data are however currently highly biased towards the generally more colourful butterflies, and include less information about moths. Additionally, studies of symbiotic partners of Lepidoptera predominantly focus on the common bacterium Wolbachia pipientis, while infections by other inherited microbial partners have more rarely been investigated. Here, we mine the whole genome sequence data of 47 species of Erebidae moths, with the aims to both inform on the diversity of symbionts potentially associated with this Lepidoptera group, and discuss the potential of metagenomic approaches to inform on host associated microbiome diversity. Based on the result of Kraken2 and MetaPhlAn2 analyses, we found clear evidence of the presence of Wolbachia in four species. Our result also suggests the presence of three other bacterial symbionts (Burkholderia spp., Sodalis spp. and Arsenophonus spp.) in three other moth species. Additionally, we recovered genomic material from bracovirus in about half of our samples. The detection of the latter, usually found in mutualistic association to braconid parasitoid wasps, may inform on host-parasite interactions that take place in the natural habitat of the Erebidae moths, suggesting either contamination with material from species of the host community network, or horizontal transfer of members of the microbiome between interacting species.
  • Susi, Hanna; Burdon, Jeremy J.; Thrall, Peter H.; Nemri, Adnane; Barrett, Luke G. (2020)
    A priority for research on infectious disease is to understand how epidemiological and evolutionary processes interact to influence pathogen population dynamics and disease outcomes. However, little is understood about how population adaptation changes across time, how sexual vs. asexual reproduction contribute to the spread of pathogens in wild populations and how diversity measured with neutral and selectively important markers correlates across years. Here, we report results from a long-term study of epidemiological and genetic dynamics within several natural populations of theLinum marginale-Melampsora liniplant-pathogen interaction. Using pathogen isolates collected from three populations of wild flax (L.marginale) spanning 16 annual epidemics, we probe links between pathogen population dynamics, phenotypic variation for infectivity and genomic polymorphism. Pathogen genotyping was performed using 1567 genome-wide SNP loci and sequence data from two infectivity loci (AvrP123,AvrP4). Pathogen isolates were phenotyped for infectivity using a differential set. Patterns of epidemic development were assessed by conducting surveys of infection prevalence in one population (Kiandra) annually. Bayesian clustering analyses revealed host population and ecotype as key predictors of pathogen genetic structure. Despite strong fluctuations in pathogen population size and severe annual bottlenecks, analysis of molecular variance revealed that pathogen population differentiation was relatively stable over time. Annually, varying levels of clonal spread (0-44.8%) contributed to epidemics. However, within populations, temporal genetic composition was dynamic with rapid turnover of pathogen genotypes, despite the dominance of only four infectivity phenotypes across the entire study period. Furthermore, in the presence of strong fluctuations in population size and migration, spatial selection may maintain pathogen populations that, despite being phenotypically stable, are genetically highly dynamic. Author summary Melampsora liniis a rust fungus that infects native flax,Linum marginalein south-eastern Australia where its epidemiology and evolution have been intensively studied since 1987. Over that time, substantial diversity in the pathotypic structure ofM.linihas been demonstrated but an understanding of how genetic diversity in pathogen populations is maintained through space and time is lacking. Here we integrated phenotypic, genotypic and epidemiological datasets spanning 16 annual epidemics across three host populations to examine long-term pathogen genetic dynamics. The results show that host ecotype is the dominant selective force in the face of strong bottlenecks and annual patterns of genetic turnover. Results from previous studies indicate that in this geographic region,M.linilacks the capacity to reproduce sexually-we thus expected to find limited genetic diversity and evidence for strong clonality influencing genetic dynamics within growing seasons. However, the breadth of genomic coverage provided by the SNP markers revealed high levels of genotypic variation withinM.linipopulations. This discovery contrasts with observed phenotypic dynamics as the epidemics of this pathogen were largely dominated by four pathotypes across the study period. Based on a detailed assessment and comparison of pathotypic and genotypic patterns, our study increases the understanding of how genetic diversity is generated and maintained through space and time within wild pathogen populations. The implications for the management of resistance to pathogens in agricultural or conservation contexts are significant: the appearance of clonality may be hiding high levels of pathogen diversity and recombination. Understanding how this diversity is generated could provide new and unique ways to mitigate or suppress the emergence of infectious strains, allowing to efficiently combat harmful diseases.
  • Berg, Venla; Lummaa, Virpi; Rickard, Ian J.; Silventoinen, Karri; Kaprio, Jaakko; Jokela, Markus (2016)
    Personality has been associated with reproductive success in humans and other animals, suggesting potential evolutionary selection pressures. However, studies to date have only examined these associations on a phenotypic level, which may be inadequate in estimating evolutionary change. Using a large longitudinal twin dataset of contemporary Finns, we compared the phenotypic (breeder's equation) and genetically informed (the Robertson-Price identity) associations between lifetime reproductive success (LRS) and two personality traits-neuroticism and extraversion. Neuroticism was not associated with LRS at the phenotypic nor genetic level, while extraversion was associated with higher LRS in men both phenotypically and genetically. Compared to the univariate phenotypic analysis, the genetic analysis suggested a larger selection response of extraversion, and a selection response of neuroticism due to indirect selection. We estimated that neuroticism decreases by .05 standard deviations and extraversion increases by .11 standard deviations by one generation. Our results highlight the importance of considering genetic associations between personality and fitness and investigating several inter-related personality traits and their covariance with each other to predict responses to selection more accurately.
  • Silva, Luis; Calleja, Maria Ll.; Ivetic, Snjezana; Huete-Stauffer, Tamara; Roth, Florian; Carvalho, Susana; Moran, Xose Anxelu G. (2021)
    In coral reefs, dissolved organic matter (DOM) cycling is a critical process for sustaining ecosystem functioning. However, global and local stressors have caused persistent shifts from coral- to algae-dominated benthic communities. The influence of such phase shifts on DOM nature and its utilization by heterotrophic bacterioplankton remains poorly studied. Every second month for one year, we retrieved seawater samples enriched in DOM produced by coral- and algae-dominated benthic communities in a central Red Sea reef during a full annual cycle. Seawater incubations were conducted in the laboratory under in situ temperature and light conditions by inoculating enriched DOM samples with bacterial assemblages collected in the surrounding waters. Dissolved organic carbon (DOC) concentrations were higher in the warmer months (May-September) in both communities, resulting in higher specific growth rates and bacterial growth efficiencies (BGE). However, these high summer values were significantly enhanced in algal-DOM relative to coral-DOM, suggesting the potential for bacterioplankton biomass increase in reefs with algae replacing healthy coral cover under warmer conditions. The potential exacerbation of heterotrophic bacterial activity in the ongoing widespread regime shift from coral- to algae-dominated communities may have detrimental consequences for the overall health of tropical coral reefs. (C) 2020 The Authors. Published by Elsevier B.V.
  • Fountain, Toby; Husby, Arild; Nonaka, Etsuko; DiLeo, Michelle; Korhonen, Janne H.; Rastas, Pasi; Schulz, Torsti Michael; Saastamoinen, Marjo Anna Kaarina; Hanski, Ilkka Aulis (2018)
    Dispersal is important for determining both species ecological processes, such as population viability, and its evolutionary processes, like gene flow and local adaptation. Yet obtaining accurate estimates in the wild through direct observation can be challenging or even impossible, particularly over large spatial and temporal scales. Genotyping many individuals from wild populations can provide detailed inferences about dispersal. We therefore utilized genomewide marker data to estimate dispersal in the classic metapopulation of the Glanville fritillary butterfly (Melitaea cinxia L.), in the Aland Islands in SW Finland. This is an ideal system to test the effectiveness of this approach due to the wealth of information already available covering dispersal across small spatial and temporal scales, but lack of information at larger spatial and temporal scales. We sampled three larvae per larval family group from 3732 groups over a six-year period and genotyped for 272 SNPs across the genome. We used this empirical data set to reconstruct cases where full-sibs were detected in different local populations to infer female effective dispersal distance, that is, dispersal events directly contributing to gene flow. On average this was one kilometre, closely matching previous dispersal estimates made using direct observation. To evaluate our power to detect full-sib families, we performed forward simulations using an individual-based model constructed and parameterized for the Glanville fritillary metapopulation. Using these simulations, 100% of predicted full-sibs were correct and over 98% of all true full-sib pairs were detected. We therefore demonstrate that even in a highly dynamic system with a relatively small number of markers, we can accurately reconstruct full-sib families and for the first time make inferences on female effective dispersal. This highlights the utility of this approach in systems where it has previously been impossible to obtain accurate estimates of dispersal over both ecological and evolutionary scales.
  • Parratt, Steven R.; Barres, Benoit; Penczykowski, Rachel M.; Laine, Anna-Liisa (2017)
    Predicting and controlling infectious disease epidemics is a major challenge facing the management of agriculture, human and wildlife health. Co-evolutionarily derived patterns of local adaptation among pathogen populations have the potential to generate variation in disease epidemiology; however, studies of local adaptation in disease systems have mostly focused on interactions between competing pathogens or pathogens and their hosts. In nature, parasites and pathogens are also subject to attack by hyperparasitic natural enemies that can severely impact upon their infection dynamics. However, few studies have investigated whether this interaction varies across combinations of pathogen-hyperparasite strains, and whether this influences hyperparasite incidence in natural pathogen populations. Here, we test whether the association between a hyperparasitic fungus, Ampelomyces, and a single powdery mildew host, Podosphaera plantaginis, varies among genotype combinations, and whether this drives hyperparasite incidence in nature. Laboratory inoculation studies reveal that genotype, genotypexgenotype interactions and local adaptation affect hyperparasite infection. However, observations of a natural pathogen metapopulation reveal that spatial rather than genetic factors predict the risk of hyperparasite presence. Our results highlight how sensitive the outcome of biocontrol using hyperparasites is to selection of hyperparasite strains.
  • Geraerts, Mare; Huyse, Tine; Barson, Maxwell; Bassirou, Hassan; Bilong Bilong, Charles F.; Bitja Nyom, Arnold R.; Chocha Manda, Auguste; Cruz-Laufer, Armando J.; Kalombo Kabalika, Clément; Kapepula Kasembele, Gyrhaiss; Muterezi Bukinga, Fidel; Njom, Samuel; Artois, Tom; Vanhove, Maarten (2022)
    The origin of introduced Nile tilapia stocks in sub-Saharan Africa is largely unknown. In this study, the potential of monogeneans as a biological tag and magnifying glass is tested to reveal their hosts' stocking history. The monogenean gill community of different Nile tilapia populations in sub-Saharan Africa was explored, and a phylogeographic analysis was performed based on the mitogenomes of four dactylogyrid species (Cichlidogyrus hani, C. sclerosus, C. thurstonae, and Scutogyrus longicornis). Our results encourage the use of dactylogyrids as biological tags. The magnifying glass hypothesis is only confirmed for C. thurstonae, highlighting the importance of the absence of other potential hosts as prerequisites for a parasite to act as a magnifying glass. With the data generated here, we are the first to extract mitogenomes from individual monogeneans and to perform an upscaled survey of the comparative phylogeography of several monogenean species with unprecedented diagnostic resolution.
  • Geraerts, Mare; Huyse, Tine; Barson, Maxwell; Bassirou, Hassan; Bilong Bilong, Charles F.; Bitja Nyom, Arnold R.; Chocha Manda, Auguste; Cruz-Laufer, Armando J.; Kalombo Kabalika, Clément; Kapepula Kasembele, Gyrhaiss; Muterezi Bukinga, Fidel; Njom, Samuel; Artois, Tom; Vanhove, Maarten (2022)
    The origin of introduced Nile tilapia stocks in sub-Saharan Africa is largely unknown. In this study, the potential of monogeneans as a biological tag and magnifying glass is tested to reveal their hosts' stocking history. The monogenean gill community of different Nile tilapia populations in sub-Saharan Africa was explored, and a phylogeographic analysis was performed based on the mitogenomes of four dactylogyrid species (Cichlidogyrus hani, C. sclerosus, C. thurstonae, and Scutogyrus longicornis). Our results encourage the use of dactylogyrids as biological tags. The magnifying glass hypothesis is only confirmed for C. thurstonae, highlighting the importance of the absence of other potential hosts as prerequisites for a parasite to act as a magnifying glass. With the data generated here, we are the first to extract mitogenomes from individual monogeneans and to perform an upscaled survey of the comparative phylogeography of several monogenean species with unprecedented diagnostic resolution.
  • Camillini, Nicola; Attard, Karl M.; Eyre, Bradley D.; Glud, Ronnie N. (2021)
    Sediment resuspension is a common process in dynamic coastal settings, but its implications for remineralization and carbon turnover in seagrass meadows are poorly understood. Here, we assessed eelgrass Zostera marina metabolism in the Baltic Sea (SW Finland) using benthic flume-chambers and aquatic eddy covariance to critically evaluate the drivers of benthic O-2 exchange during dynamic flow conditions. During quiescent weather conditions, the 2 methods resolved similar metabolic rates and net ecosystem autotrophy (+/- 11% of each other). However, elevated flow speeds and sediment resuspension halfway through the study induced a 5-fold increase in the O-2 uptake rates measured by eddy covariance, whereas chamber fluxes remained relatively unchanged. Following particle resettlement, instruments were redeployed and the benthic O-2 uptake resolved by both techniques was just similar to 30% of the values measured before resuspension. Laboratory investigations revealed sediment resuspension could potentially increase benthic O-2 uptake up to 6-fold, mainly due to the reoxidation of reduced compounds (e.g. FeSx). This process was fully captured by the eddy O-2 fluxes, but not by the chamber incubation. Consequently, the chamber and eddy net ecosystem metabolism amounted to - 17 and -824 mmol C m(-2), respectively, throughout the study period. The rapid reoxidation and long-term effects of resuspension on benthic O-2 dynamics highlight the importance of fully capturing dynamic conditions when assessing the overall carbon turnover in coastal habitats. Future studies on the biogeochemical functioning of coastal environments should aim to capture the natural frequency and duration of resuspension events.
  • Cayuela, Hugo; Lemaitre, Jean-Francois; Lena, Jean-Paul; Ronget, Victor; Martinez-Solano, Inigo; Muths, Erin; Pilliod, David S.; Schmidt, Benedikt R.; Sanchez-Montes, Gregorio; Gutierrez-Rodriguez, Jorge; Pyke, Graham; Grossenbacher, Kurt; Lenzi, Omar; Bosch, Jaime; Beard, Karen H.; Woolbright, Lawrence L.; Lambert, Brad A.; Green, David M.; Jreidini, Nathalie; Garwood, Justin M.; Fisher, Robert N.; Matthews, Kathleen; Dudgeon, David; Lau, Anthony; Speybroeck, Jeroen; Homan, Rebecca; Jehle, Robert; Baskale, Eyup; Mori, Emiliano; Arntzen, Jan W.; Joly, Pierre; Stiles, Rochelle M.; Lannoo, Michael J.; Maerz, John C.; Lowe, Winsor H.; Valenzuela-Sanchez, Andres; Christiansen, Ditte G.; Angelini, Claudio; Thirion, Jean-Marc; Merilä, Juha; Colli, Guarino R.; Vasconcellos, Mariana M.; Boas, Taissa C. V.; Arantes, isis da C.; Levionnois, Pauline; Reinke, Beth A.; Vieira, Cristina; Marais, Gabriel A. B.; Gaillard, Jean-Michel; Miller, David A. W. (2022)
    Sex-related differences in mortality are widespread in the animal kingdom. Although studies have shown that sex determination systems might drive lifespan evolution, sex chromosome influence on aging rates have not been investigated so far, likely due to an apparent lack of demographic data from clades including both XY (with heterogametic males) and ZW (heterogametic females) systems. Taking advantage of a unique collection of capture-recapture datasets in amphibians, a vertebrate group where XY and ZW systems have repeatedly evolved over the past 200 million years, we examined whether sex heterogamy can predict sex differences in aging rates and lifespans. We showed that the strength and direction of sex differences in aging rates (and not lifespan) differ between XY and ZW systems. Sex-specific variation in aging rates was moderate within each system, but aging rates tended to be consistently higher in the heterogametic sex. This led to small but detectable effects of sex chromosome system on sex differences in aging rates in our models. Although preliminary, our results suggest that exposed recessive deleterious mutations on the X/Z chromosome (the "unguarded X/Z effect") or repeat-rich Y/W chromosome (the "toxic Y/W effect") could accelerate aging in the heterogametic sex in some vertebrate clades.
  • Eck, Jenalle L.; Barrès, Benoit; Soubeyrand, Samuel; Siren, Jukka; Numminen, Elina; Laine, Anna-Liisa (2022)
    The inherently variable nature of epidemics renders predictions of when and where infection is expected to occur challenging. Differences in pathogen strain composition, diversity, fitness, and spatial distribution are generally ignored in epidemiological modeling and are rarely studied in natural populations, yet they may be important drivers of epidemic trajectories. To examine how these factors are linked to epidemics in natural host populations, we collected epidemiological and genetic data from 15 populations of the powdery mildew fungus, Podosphaera plantaginis, on Plantago lanceolata in the angstrom land Islands, Finland. In each population, we tracked spatiotemporal disease progression throughout one epidemic season and coupled our survey of infection with intensive field sampling of the pathogen. We found that strain composition varied greatly among populations in the landscape. Within populations, strain composition was driven by the sequence of strain activity: early-active strains reached higher abundances, leading to consistent strain compositions over time. Co-occurring strains also varied in their contribution to the growth of the local epidemic, and these fitness inequalities were linked to epidemic dynamics: a higher proportion of hosts became infected in populations containing strains that were more similar in fitness. Epidemic trajectories in the populations were also linked to strain diversity and spatial dynamics: higher infection rates occurred in populations containing higher strain diversity, while spatially clustered epidemics experienced lower infection rates. Together, our results suggest that spatial and/or temporal variation in the strain composition, diversity, and fitness of pathogen populations are important factors generating variation in epidemiological trajectories among infected host populations.
  • Parratt, Steven R.; Frost, Crystal L.; Schenkel, Martijn A.; Rice, Annabel; Hurst, Gregory D. D.; King, Kayla C. (2016)
    Heritable microbial symbionts have profound impacts upon the biology of their arthropod hosts. Whilst our current understanding of the dynamics of these symbionts is typically cast within a framework of vertical transmission only, horizontal transmission has been observed in a number of cases. For instance, several symbionts can transmit horizontally when their parasitoid hosts share oviposition patches with uninfected conspecifics, a phenomenon called superparasitism. Despite this, horizontal transmission, and the host contact structures that facilitates it, have not been considered in heritable symbiont epidemiology. Here, we tested for the importance of host contact, and resulting horizontal transmission, for the epidemiology of a male-killing heritable symbiont (Arsenophonus nasoniae) in parasitoid wasp hosts. We observed that host contact through superparasitism is necessary for this symbiont's spread in populations of its primary host Nasonia vitripennis, such that when superparasitism rates are high, A. nasoniae almost reaches fixation, causes highly female biased population sex ratios and consequently causes local host extinction. We further tested if natural interspecific variation in superparasitism behaviours predicted symbiont dynamics among parasitoid species. We found that A. nasoniae was maintained in laboratory populations of a closely related set of Nasonia species, but declined in other, more distantly related pteromalid hosts. The natural proclivity of a species to superparasitise was the primary factor determining symbiont persistence. Our results thus indicate that host contact behaviour is a key factor for heritable microbe dynamics when horizontal transmission is possible, and that 'reproductive parasite' phenotypes, such as male-killing, may be of secondary importance in the dynamics of such symbiont infections.
  • Zohdy, Sarah; Gerber, Brian D.; Tecot, Stacey; Blanco, Marina B.; Winchester, Julia M.; Wright, Patricia C.; Jernvall, Jukka (2014)
  • Brommer, Jon E.; Kekkonen, Jaana; Wikström, Mikael (2015)
    A heterozygosity-fitness correlations (HFCs) may reflect inbreeding depression, but the extent to which they do so is debated. HFCs are particularly likely to occur after demographic disturbances such as population bottleneck or admixture. We here study HFC in an introduced and isolated ungulate population of white-tailed deer Odocoileus virginianus in Finland founded in 1934 by four individuals. A total of 4221-year-old white-tailed deer were collected in the 2012 hunting season in southern Finland and genotyped for 14 microsatellite loci. We find significant identity disequilibrium as estimated by g(2). Heterozygosity was positively associated with size- and age-corrected body mass, but not with jaw size or (in males) antler score. Because of the relatively high identity disequilibrium, heterozygosity of the marker panel explained 51% of variation in inbreeding. Inbreeding explained approximately 4% of the variation in body mass and is thus a minor, although significant source of variation in body mass in this population. The study of HFC is attractive for game- and conservation-oriented wildlife management because it presents an affordable and readily used approach for genetic monitoring that allowing identification of fitness costs associated with genetic substructuring in what may seem like a homogeneous population.