43 Works

Data from: Genome-wide SNP data unveils the globalization of domesticated pigs

Bin Yang, Leilei Cui, Miguel Perez-Enciso, Aleksei Traspov, Richard P. M. A. Crooijmans, Natalia Zinovieva, Lawrence B. Schook, Alan Archibald, Kesinee Gatphayak, Christophe Knorr, Alex Triantafyllidis, Panoraia Alexandri, Gono Semiadi, Olivier Hanotte, Deodália Dias, Peter Dovč, Pekka Uimari, Laura Iacolina, Massimo Scandura, Martien A. M. Groenen, Lusheng Huang & Hendrik-Jan Megens
Background: Pigs were domesticated independently in Eastern and Western Eurasia early during the agricultural revolution, and have since been transported and traded across the globe. Here, we present a worldwide survey on 60K genome-wide single nucleotide polymorphism (SNP) data for 2093 pigs, including 1839 domestic pigs representing 122 local and commercial breeds, 215 wild boars, and 39 out-group suids, from Asia, Europe, America, Oceania and Africa. The aim of this study was to infer global...

Data from: Testing the validity of functional response models using molecular gut content analysis for prey choice in soil predators

Bernhard Eitzinger, Björn Rall, Michael Traugott & Stefan Scheu
Analysis of predator - prey interactions is a core concept of animal ecology, explaining structure and dynamics of animal food webs. Measuring the functional response, i.e. the intake rate of a consumer as a function of prey density, is a powerful method to predict the strength of trophic links and assess motives of prey choice, particularly in arthropod communities. However, due to their reductionist set-up, functional responses, which are based on laboratory feeding experiments, may...

Data from: Evolutionary contribution to coexistence of competitors in microbial food webs

Teppo Hiltunen, Veijo Kaitala, Jouni Laakso & Lutz Becks
The theory of species coexistence is a key concept in ecology that has received much attention. The role of rapid evolution for determining species coexistence is still poorly understood although evolutionary change on ecological time-scales has the potential to change almost any ecological process. The influence of evolution on coexistence can be especially pronounced in microbial communities where organisms often have large population sizes and short generation times. Previous work on coexistence has assumed that...

Data from: Genetic effects on life-history traits in the Glanville fritillary butterfly

Anne Duplouy, Swee Chong Wong, Jukka Corander, Rainer Lehtonen & Ilkka Hanski
Background: Adaptation to local habitat conditions may lead to the natural divergence of populations in life-history traits such as body size, time of reproduction, mate signaling or dispersal capacity. Given enough time and strong enough selection pressures, populations may experience local genetic differentiation. The genetic basis of many life-history traits, and their evolution according to different environmental conditions remain however poorly understood. Methods: We conducted an association study on the Glanville fritillary butterfly, using material...

Invertebrate biomass, vegetation cover, and environmental data from Hengill, Iceland

E.J. O'Gorman, S.I Robinson, Ó.B. McLaughlin & B. Marteinsdóttir
This is a dataset of environmental data, percentage vegetation cover, total invertebrate abundance, and mean invertebrate body mass, sampled at 96 soil habitat patches in the Hengill geothermal valley, Iceland, in July 2013. The habitat patches span a temperature gradient of 7-38 degrees C, yet they occur within 2 km of each other and have similar soil moisture, pH, total carbon, and total nitrogen. Effects of soil temperature on the structure and diversity of plant...

Data from: Predation cost of a sexual signal in the threespine stickleback

Sini Johnson & Ulrika Candolin
Much evidence exists for sexually selected traits reflecting various components of mate quality, but the factors that limit signal expression and ensure honest signaling are less well known. Predation risk has been proposed to be one factor that could constrain the elaboration of visually conspicuous signals and ensure honesty, but little evidence exists because of limitations of earlier used methods. We investigated using a combination of field observations and experimental work if a conspicuous sexual...

Data from: Carrion fly-derived DNA metabarcoding is an effective tool for mammal surveys: evidence from a known tropical mammal community

Torrey W. Rodgers, Charles C. Y. Xu, Jacalyn Giacalone, Karen M. Kapheim, Kristin Saltonstall, Marta Vargas, Douglas W. Yu, Panu Somervuo, W. Owen McMillan & Patrick A. Jansen
Metabarcoding of vertebrate DNA derived from carrion flies has been proposed as a promising tool for biodiversity monitoring. To evaluate its efficacy, we conducted metabarcoding surveys of carrion flies on Barro Colorado Island (BCI), Panama, which has a well-known mammal community, and compared our results against diurnal transect counts and camera-trapping. We collected 1084 flies in 29 sampling days, conducted metabarcoding with mammal-specific (16S) and vertebrate-specific (12S) primers, and sequenced amplicons on Illumina MiSeq. For...

Data from: Higher predation risk for insect prey at low latitudes and elevations

Tomas Roslin, Bess Hardwick, Vojtech Novotny, William K. Petry, Nigel R. Andrew, Ashley Asmus, Isabel C. Barrio, Yves Basset, Andrea Larissa Boesing, Timothy C. Bonebrake, Erin K. Cameron, Wesley Dáttilo, David A. Donoso, Pavel Drozd, Claudia L. Gray, David S. Hik, Sarah J. Hill, Tapani Hopkins, Shuyin Huang, Bonny Koane, Benita Laird-Hopkins, Liisa Laukkanen, Owen T. Lewis, Sol Milne, Isaiah Mwesige … & Eleanor M. Slade
Biotic interactions underlie ecosystem structure and function, but predicting interaction outcomes is difficult. We tested the hypothesis that biotic interaction strength increases toward the equator, using a global experiment with model caterpillars to measure predation risk. Across an 11,660-kilometer latitudinal gradient spanning six continents, we found increasing predation toward the equator, with a parallel pattern of increasing predation toward lower elevations. Patterns across both latitude and elevation were driven by arthropod predators, with no systematic...

Data from: Inferring dispersal across a fragmented landscape using reconstructed families in the Glanville fritillary butterfly

Toby Fountain, Arild Husby, Etsuko Nonaka, Michelle F. DiLeo, Janne H. Korhonen, Pasi Rastas, Torsti Schulz, Marjo Saastamoinen & Ilkka Hanski
Dispersal is important for determining both a 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...

Data from: Genome-wide meta-analysis of sciatica in Finnish population

Susanna Lemmelä, Svetlana Solovieva, Rahman Shiri, Christian Benner, Markku Heliövaara, Johannes Kettunen, Verneri Anttila, Samuli Ripatti, Markus Perola, Ilkka Seppälä, Markus Juonala, Mika Kähönen, Veikko Salomaa, Jorma Viikari, Olli Raitakari, Terho Lehtimäki, Aarno Palotie, Eira Viikari-Juntula, Kirsti Husgafvel-Pursiainen, Olli T. Raitakari & Eira Viikari-Juntura
Sciatica or the sciatic syndrome is a common and often disabling low back disorder in the working-age population. It has a relatively high heritability but poorly understood molecular mechanisms. The Finnish population is a genetic isolate where small founder population and bottleneck events have led to enrichment of certain rare and low frequency variants. We performed here the first genome-wide association (GWAS) and meta-analysis of sciatica. The meta-analysis was conducted across two GWAS covering 291...

Data from: Extraordinarily rapid speciation in a marine fish

Paolo Momigliano, Henri Jokinen, Antoine Fraimout, Ann-Britt Florin, Alf Norkko & Juha Merilä
Divergent selection may initiate ecological speciation extremely rapidly. How often and at what pace ecological speciation proceeds to yield strong reproductive isolation is more uncertain. Here, we document a case of extraordinarily rapid speciation associated with ecological selection in the postglacial Baltic Sea. European flounders (Platichthys flesus) in the Baltic exhibit two contrasting reproductive behaviors: pelagic and demersal spawning. Demersal spawning enables flounders to thrive in the low salinity of the Northern Baltic, where eggs...

Data from: Pellets of proof: first glimpse of the dietary composition of adult odonates as revealed by metabarcoding of feces

Kari M. Kaunisto, Tomas Roslin, Ilari E. Sääksjärvi & Eero J. Vesterinen
Recent advances in molecular techniques allow us to resolve the diet of unstudied taxa. Odonates are potentially important top-down regulators of many insects. Yet, to date, our knowledge of odonate prey use is based mainly on limited observations of odonates catching or eating their prey. In this study, we examine the potential use of metabarcoding in establishing the diet of three adult odonate species (Lestes sponsa, Enallagma cyathigerum, and Sympetrum danae) at a site in...

Data from: Selection on the morphology-physiology-performance nexus: lessons from freshwater stickleback morphs

Sergey Morozov, Tuomas Leinonen, Juha Merilä, R.J. Scott McCairns & R. J. Scott McCairns
Conspecifics inhabiting divergent environments frequently differ in morphology, physiology and performance, but the interrelationships amongst traits and with Darwinian fitness remains poorly understood. We investigated population differentiation in morphology, metabolic rate and swimming performance in three-spined sticklebacks (Gasterosteus aculeatus L.), contrasting a marine/ancestral population with two distinct freshwater morphotypes derived from it: the ‘typical’ low-plated morph, and a unique ‘small-plated’ morph. We test the hypothesis that similar to plate loss in other freshwater populations, reduction...

Data from: Advancing Precambrian palaeomagnetism with the PALEOMAGIA and PINT(QPI) databases

Toni H. Veikkolainen, Andrew J. Biggin, Lauri J. Pesonen, David A. Evans & Nicholas A. Jarboe
State-of-the-art measurements of the direction and intensity of Earth’s ancient magnetic field have made important contributions to our understanding of the geology and palaeogeography of Precambrian Earth. The PALEOMAGIA and PINT(QPI) databases provide thorough public collections of important palaeomagnetic data of this kind. They comprise more than 4,100 observations in total and have been essential in supporting our international collaborative efforts to understand Earth's magnetic history on a timescale far longer than that of the...

Data from: Genetic rescue of an endangered domestic animal through outcrossing with closely related breeds: a case study of the Norwegian Lundehund

Astrid V. Stronen, Elina Salmela, BK Baldursdóttir, P Berg, IS Espelien, Kirsi Järvi, Henrik Jensen, TN Kristensen, Claudia Melis, Tommaso Manenti, Hannes Lohi, Cino Pertoldi & Torsten N. Kristensen
Genetic rescue, outcrossing with individuals from a related population, is used to augment genetic diversity in populations threatened by severe inbreeding and extinction. The endangered Norwegian Lundehund dog (henceforth Lundehund) underwent at least two severe bottlenecks in the 1940s and 1960s that each left only five inbred dogs, and the approximately 1500 dogs remaining world-wide today appear to descend from only two individuals. The Lundehund has a high prevalence of a gastrointestinal disease, to which...

Data from: Assessing the dynamics of natural populations by fitting individual based models with approximate Bayesian computation

Jukka Sirén, Luc Lens, Laurence Cousseau & Otso Ovaskainen
1. Individual based models (IBMs) allow realistic and flexible modelling of ecological systems, but their parametrization with empirical data is statistically and computationally challenging. Approximate Bayesian computation (ABC) has been proposed as an efficient approach for inference with IBMs, but its applicability to data on natural populations has not been yet fully explored. 2. We construct an IBM for the metapopulation dynamics of a species inhabiting a fragmented patch network, and develop an ABC method...

Data from: Climate-driven build-up of temporal isolation within a recently formed avian hybrid zone

Päivi Maria Sirkiä, S. Eryn McFarlane, William Jones, David Wheatcroft, Murielle Ålund, Jakub Rybinski & Anna Qvarnstrom
Divergence in the onset of reproduction can act as an important source of reproductive isolation (i.e. allochronic isolation) between co-occurring young species, but evidence for the evolutionary processes leading to such divergence is often indirect. While advancing spring seasons strongly affect the onset of reproduction in many taxa, it remains largely unexplored whether contemporary spring advancement directly affects allochronic isolation between young species. We examined how increasing spring temperatures affected onset of reproduction and thereby...

Data from: Safety of single low-dose primaquine in glucose-6-phosphate dehydrogenase deficient falciparum-infected African males: two open-label, randomized, safety trials

Guido Bastiaens, Alfred B. Tiono, Joseph Okebe, Helmi Pett, Sam A. Coulibaly, Bronner P. Gonçalves, Muna Affara, Alphonse Ouédraogo, Edith C. Bougouma, Guillaume S. Sanou, Issa Nébié, John Bradley, Kjerstin H. W. Lanke, Mikko Niemi, Sodiomon B. Sirima, Umberto D'Alessandro, Teun Bousema, Chris Drakeley, Guido J. H. Bastiaens, Helmi E. Pett & Umberto D’Alessandro
Background: Primaquine (PQ) actively clears mature Plasmodium falciparum gametocytes but in glucose-6-phosphate dehydrogenase deficient (G6PDd) individuals can cause hemolysis. We assessed the safety of low-dose PQ in combination with artemether-lumefantrine (AL) or dihydroartemisinin-piperaquine (DP) in G6PDd African males with asymptomatic P. falciparum malaria. Methods and findings: In Burkina Faso, G6PDd adult males were randomized to treatment with AL alone (n = 10) or with PQ at 0.25 (n = 20) or 0.40 mg/kg (n =...

Data from: Related herbivore species show similar temporal dynamics

F. Guillaume Blanchet, Tomas Roslin, Masahito T. Kimura, Tea Huotari, Riikka Kaartinen, Sofia Gripenberg & Ayco J. M. Tack
1.Within natural communities, different taxa display different dynamics in time. Why this is the case we do not fully know. This thwarts our ability to predict changes in community structure, which is important for both the conservation of rare species in natural communities and for the prediction of pest outbreaks in agriculture. 2.Species sharing phylogeny, natural enemies and/or life history traits have been hypothesized to share similar temporal dynamics. We operationalized these concepts into testing...

Data from: Does sex matter? Gender-specific responses to forest fragmentation in Neotropical bats

Ricardo Rocha, Diogo F. Ferreira, Adrià López-Baucells, Fabio Z. Farneda, Joao M.B. Carreiras, Jorge M. Palmeirim & Christoph F. J. Meyer
Understanding the consequences of habitat modification on wildlife communities is central to the development of conservation strategies. However, albeit male and female individuals of numerous species are known to exhibit differences in habitat use, sex-specific responses to habitat modification remain little explored. Here, we used a landscape-scale fragmentation experiment to assess, separately for males and females, the effects of fragmentation on the abundance of Carollia perspicillata and Rhinophylla pumilio, two widespread Neotropical frugivorous bats. We...

Data from: Breeding bird species diversity across gradients of land use from forest to agriculture in Europe

Matti J. Koivula, Dan E. Chamberlain, Robert J. Fuller, Stephen C. F. Palmer, Attila Bankovics, Fintan Bracken, Tom Bolger, Eduardo De Juana, Marc Montadert, Renato Neves, Rui Rufino, Angel Sallent, Luís Lopes Da Silva, Pedro J. Leitão, Manfred Steffen & Allan D. Watt
Loss, fragmentation and decreasing quality of habitats have been proposed as major threats to biodiversity world-wide, but relatively little is known about biodiversity responses to multiple pressures, particularly at very large spatial scales. We evaluated the relative contributions of four landscape variables (habitat cover, diversity, fragmentation and productivity) in determining different components of avian diversity across Europe. We sampled breeding birds in multiple 1-km2 landscapes, from high forest cover to intensive agricultural land, in eight...

Data from: Monthly microclimate models in a managed boreal forest landscape

Caroline Greiser, Eric Meineri, Miska Luoto, Johan Ehrlén & Kristoffer Hylander
The majority of microclimate studies have been done in topographically complex landscapes to quantify and predict how near-ground temperatures vary as a function of terrain properties. However, in forests understory temperatures can be strongly influenced also by vegetation. We quantified the relative influence of vegetation features and physiography (topography and moisture-related variables) on understory temperatures in managed boreal forests in central Sweden. We used a multivariate regression approach to relate near-ground temperature of 203 loggers...

Data from: Widespread hybridization within mound-building wood ants in Southern Finland results in cytonuclear mismatches and potential for sex-specific hybrid breakdown

Jack Beresford, Marianne Elias, Lucy Pluckrose, Liselotte Sundström, Roger K. Butlin, Pekka Pamilo & Jonna Kulmuni
Hybridization and gene flow between diverging lineages is increasingly recognized as a common evolutionary process and its consequences can vary from hybrid breakdown to adaptive introgression. We have previously found a population of wood ant hybrids between Formica aquilonia and F. polyctena that shows antagonistic effects of hybridization: females with introgressed alleles show hybrid vigour, whereas males with the same alleles show hybrid breakdown. Here we investigate whether hybridization is a general phenomenon in this...

Data from: Population genetic analysis of a global collection of Fragaria vesca using microsatellite markers

Hrannar Smári Hilmarsson, Timo Hytönen, Sachiko Isobe, Magnus Göransson, Tuomas Toivainen & Jón Hallsteinn Hallsson
The woodland strawberry, Fragaria vesca, holds great promise as a model organism. It not only represents the important Rosaceae family that includes economically important species such as apples, pears, peaches and roses, but it also complements the well-known model organism Arabidopsis thaliana in key areas such as perennial life cycle and the development of fleshy fruit. Analysis of wild populations of A. thaliana has shed light on several important developmental pathways controlling, for example, flowering...

Data from: Local demographic and epidemiological patterns in the Linum marginale – Melampsora lini association – a multi-year study

Hanna Susi, Peter H. Thrall, Luke G. Barrett & Jeremy J. Burdon
1.Many theoretical and empirical studies operate from an assumption that pathogens have a significant influence on the fecundity and lifespan of their host species. However, there is surprisingly little data investigating the long-term fitness impacts and genetic consequences that arise from pathogen infection in natural populations. Here, we address this gap through the analysis of a dataset investigating the local population dynamics of a native host plant (Linum marginale) and an associated rust pathogen (Melampsora...

Registration Year

  • 2017

Resource Types

  • Dataset


  • University of Helsinki
  • Swedish University of Agricultural Sciences
  • University of Jyväskylä
  • University of Eastern Finland
  • University of Groningen
  • Smithsonian Tropical Research Institute
  • Wageningen University & Research
  • University of Turku
  • University of Cambridge
  • Finnish Environment Institute