38 Works

Data from: Population structure in Atlantic cod in the eastern North Sea-Skagerrak-Kattegat: early life stage dispersal and adult migration

Carl André, Henrik Svedäng, Halvor Knutsen, Geir Dahle, Patrik Jonsson, Anna-Karin Ring, Mattias Sköld & Per Erik Jorde
Background: In marine fish species, where pelagic egg and larvae drift with ocean currents, population structure has been suggested to be maintained by larval retention due to hydrographic structuring and by homing of adult fish to natal areas. Whilst natal homing of adults has been demonstrated for anadromous and coral reef fishes, there are few documented examples of philopatric migration in temperate marine fish species. Results: Here, we demonstrate temporally stable genetic differentiation among spawning...

Data from: Genomics of speciation and introgression in Princess cichlid fishes from Lake Tanganyika

Hugo F. Gante, Michael Matschiner, Martin Malmstrøm, Kjetill S. Jakobsen, Sissel Jentoft & Walter Salzburger
How variation in the genome translates into biological diversity and new species originate has endured as the mystery of mysteries in evolutionary biology. African cichlid fishes are prime model systems to address speciation-related questions for their remarkable taxonomic and phenotypic diversity, and the possible role of gene flow in this process. Here, we capitalize on genome sequencing and phylogenomic analyses to address the relative impacts of incomplete lineage sorting, introgression and hybrid speciation in the...

Data from: BsRADseq: screening DNA methylation in natural populations of non-model species

Emiliano Trucchi, Anna B. Mazzarella, Gregor D. Gilfillan, Maria T. Lorenzo, Peter Schönswetter & Ovidiu Paun
Epigenetic modifications are expected to occur at a much faster rate than genetic mutations, potentially causing isolated populations to stochastically drift apart, or if they are subjected to different selective regimes, to directionally diverge. A high level of genome-wide epigenetic divergence between individuals occupying distinct habitats is therefore predicted. Here, we introduce bisulfite-converted restriction site associated DNA sequencing (bsRADseq), an approach to quantify the level of DNA methylation differentiation across multiple individuals. This reduced representation...

Data from: Combined analysis of variation in core, accessory and regulatory genome regions provides a super-resolution view into the evolution of bacterial populations

Alan McNally, Yaara Oren, Darren Kelly, Ben Pascoe, Steven Dunn, Tristan Seecharan, Minna Vehkala, Niko Välimäki, Michael B. Prentice, Amgad Ashour, Oren Avram, Tal Pupko, Ulrich Dobrindt, Ivan Literak, Sebastian Guenther, Katharina Schauffler, Lothar H. Wieler, Zong Zhiyong, Samuel K. Sheppard, James O. McInerney, Jukka Corander & Tristan Sreecharan
The use of whole-genome phylogenetic analysis has revolutionized our understanding of the evolution and spread of many important bacterial pathogens due to the high resolution view it provides. However, the majority of such analyses do not consider the potential role of accessory genes when inferring evolutionary trajectories. Moreover, the recently discovered importance of the switching of gene regulatory elements suggests that an exhaustive analysis, combining information from core and accessory genes with regulatory elements could...

Data from: The role of plasma and urine metabolomics in identifying new biomarkers in severe newborn asphyxia: a study of asphyxiated newborn pigs following cardiopulmonary resuscitation

Daniel Sachse, Anne Lee Solevåg, Jens Petter Berg & Britt Nakstad
Background: Optimizing resuscitation is important to prevent morbidity and mortality from perinatal asphyxia. The metabolism of cells and tissues is severely disturbed during asphyxia and resuscitation, and metabolomic analyses provide a snapshot of many small molecular weight metabolites in body fluids or tissues. In this study metabolomics profiles were studied in newborn pigs that were asphyxiated and resuscitated using different protocols to identify biomarkers for subject characterization, intervention effects and possibly prognosis. Methods: A total...

Data from: Different contributions of local- and distant-regulatory changes to transcriptome divergence between stickleback ecotypes

Asano Ishikawa, Makoto Kusakabe, Kohta Yoshida, Mark Ravinet, Takashi Makino, Atsushi Toyoda, Asao Fujiyama & Jun Kitano
Differential gene expression can play an important role in phenotypic evolution and divergent adaptation. Although differential gene expression can be caused by both local- and distant-regulatory changes, we know little about their relative contribution to transcriptome evolution in natural populations. Here, we conducted expression quantitative trait loci (eQTL) analysis to investigate the genetic architecture underlying transcriptome divergence between marine and stream ecotypes of threespine sticklebacks (Gasterosteus aculeatus). We identified both local and distant eQTLs, some...

Data from: The temporal window of ecological adaptation in postglacial lakes: a comparison of head morphology, trophic position and habitat use in Norwegian threespine stickleback populations

Kjartan Østbye, Chris Harrod, Finn Gregersen, Tom Klepaker, Michael Schulz, Dolph Schluter & Leif Asbjørn Vøllestad
Background: Studying how trophic traits and niche use are related in natural populations is important in order to understand adaptation and specialization. Here, we describe trophic trait diversity in twenty-five Norwegian freshwater threespine stickleback populations and their putative marine ancestor, and relate trait differences to postglacial lake age. By studying lakes of different ages, depths and distance to the sea we examine key environmental variables that may predict adaptation in trophic position and habitat use....

Data from: Lateral plate number in low-plated threespine stickleback: a study of plasticity and heritability

Truls H. Hansson, Barbara Fischer, Anna B. Mazzarella, Kjetil L. Voje & Leif Asbjørn Vøllestad
In the threespine stickleback Gasterosteus aculeatus model system, phenotypes are often classified into three morphs according to lateral plate number. Morph identity has been shown to be largely genetically determined, but substantial within-morph variation in plate number exists. In this study, we test whether plate number has a plastic component in response to salinity in the low-plated morph using a split-clutch experiment where families were split in two, one half raised in water at 0...

Data from: Host and tissue variation overshadow the response of boreal moss-associated fungal communities to increased nitrogen load

Marie L. Davey, Marte J. Skogen, Einar Heegaard, Rune Halvorsen, Håvard Kauserud & Mikael Ohlson
Human activity has more than doubled the amount of nitrogen entering the global nitrogen cycle, and the boreal forest biome is a nitrogen-limited ecosystem sensitive to nitrogen load perturbation. Although bryophyte-associated microbes contribute significantly to boreal forest ecosystem function, particularly in carbon and nitrogen cycling, little is known about their responses to anthropogenic global change. Amplicon pyrosequencing of the ITS2 region of rDNA was used to investigate how fungal communities associated with three bryophyte species...

Data from: Weak geographical structure in sperm morphology across the range of two willow warbler Phylloscopus trochilus subspecies in Scandinavia

Hanna N. Støstad, Silje L. Rekdal, Oddmund Kleven, Terje Laskemoen, Gunnhild Marthinsen, Arild Johnsen & Jan T. Lifjeld
Sperm morphology is highly diversified among species and at higher taxonomic levels. In birds, there is also increasing evidence of geographical differentiation in sperm traits within species, especially in those with strong sperm competition. Geographical divergences in sperm traits might imply the formation of a reproductive barrier in a speciation process. Here we study sperm morphology variation of willow warblers Phylloscopus trochilus in a geographical context in Scandinavia, across the range of two subspecies that...

Data from: Early diversification of sperm size in the evolutionary history of the old world leaf warblers (Phylloscopidae)

K. Supriya, Melissah Rowe, Terje Laskemoen, Dhananjai Mohan, Trevor Price, Jan Lifjeld, J. T. Lifjeld & T. D. Price
Sperm morphological traits are highly variable among species and are commonly thought to evolve by post-copulatory sexual selection. However, little is known about the evolutionary dynamics of sperm morphology, and whether rates of evolutionary change are variable over time and among taxonomic groups. Here, we examine sperm morphology from 21 species of Old World leaf warblers (Phylloscopidae), a group of generally dull, sexually monochromatic birds, which are known to have high levels of extra-pair paternity....

Data from: Temporal variation in habitat selection breaks the catch-22 of spatially contrasting predation risk from multiple predators

Karen Lone, Atle Mysterud, Terje Gobakken, John Odden, John Linnell & Leif Egil Loe
Predator avoidance depends on prey being able to discern how risk varies in space and time, but this is made considerably more complicated if risk is simultaneously present from multiple predators. This is the situation for an increasing number of mammalian prey species, as large carnivores recover or are reintroduced in ecosystems on several continents. Roe deer Capreolus capreolus in southern Norway illustrate a case in which prey face two predators with contrasting patterns of...

Data from: How many more? Sample size determination in studies of morphological integration and evolvability

Mark Grabowski & Arthur Porto
The variational properties of living organisms are an important component of current evolutionary theory. As a consequence, researchers working on the field of multivariate evolution have increasingly used integration and evolvability statistics as a way of capturing the potentially complex patterns of trait association and their effects over evolutionary trajectories. Little attention has been paid, however, to the cascading effects that inaccurate estimates of trait covariance have on these widely used evolutionary statistics. Here, we...

Data from: Habitat discontinuities separate genetically divergent populations of a rocky shore marine fish

Enrique Blanco Gonzalez, Halvor Knutsen & Per Erik Jorde
Habitat fragmentation has been suggested to be responsible for major genetic differentiations in a range of marine organisms. In this study, we combined genetic data and environmental information to unravel the relative role of geography and habitat heterogeneity on patterns of genetic population structure of corkwing wrasse (Symphodus melops), a rocky shore species at the northern limit of its distribution range in Scandinavia. Our results revealed a major genetic break separating populations inhabiting the western...

Data from: DNA metabarcoding reveals diet overlap between the endangered Walia ibex and domestic goats - implications for conservation

Berihun Gebremedhin, Øystein Flagstad, Afework Bekele, Desalegn Chala, Vegar Bakkestuen, Sanne Boessenkool, Magnus Popp, Galina Gussarova, Audun Schrøder-Nielsen, Sileshi Nemomissa, Christian Brochmann, Nils Christian Stenseth, Laura Saskia Epp & Nils Chr. Stenseth
Human population expansion and associated degradation of the habitat of many wildlife species cause loss of biodiversity and species extinctions. The small Simen Mountains National Park in Ethiopia is one of the last strongholds for the preservation of a number of afro-alpine mammals, plants and birds, and it is home to the rare endemic Walia ibex, Capra walie. The narrow distribution range of this species as well as potential competition for resources with livestock, especially...

Data from: Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis

Marcin J. Skwark, Nicholas J. Croucher, Santeri Puranen, Claire Chewapreecha, Maiju Pesonen, Ying Ying Xu, Paul Turner, Simon R. Harris, Stephen B. Beres, James M. Musser, Julian Parkhill, Stephen D. Bentley, Erik Aurell & Jukka Corander
Recent advances in the scale and diversity of population genomic datasets for bacteria now provide the potential for genome-wide patterns of co-evolution to be studied at the resolution of individual bases. Here we describe a new statistical method, genomeDCA, which uses recent advances in computational structural biology to identify the polymorphic loci under the strongest co-evolutionary pressures. We apply genomeDCA to two large population data sets representing the major human pathogens Streptococcus pneumoniae (pneumococcus) and...

Data from: DNA barcoding of tuberous Orchidoideae: a resource for identification of orchids used in Salep

Abdolbaset Ghorbani, Barbara Gravendeel, Sugirthini Selliah, Shahin Zarré & Hugo De Boer
Tubers of terrestrial orchids are harvested and traded from the eastern Mediterranean to the Caspian Sea for the traditional product Salep. Overexploitation of wild populations and increased middle-class prosperity have escalated prices for Salep, causing overharvesting, depletion of native populations and providing an incentive to expand harvesting to untapped areas in Iran. Limited morphological distinctiveness among traded Salep tubers renders species identification impossible, making it difficult to establish which species are targeted and affected the...

Data from: Ecological speciation by temporal isolation in a population of the stonefly Leuctra hippopus (Plecoptera, Leuctridae)

Louis Boumans, Silje Hogner, John Brittain & Arild Johnsen
Stream dwelling invertebrates are ideal candidates for the study of ecological speciation as they are often adapted to particular environmental conditions within a stream and inhabit only certain reaches of a drainage basin, separated by unsuitable habitat. We studied an atypical population of the stonefly Leuctra hippopus at a site in central Norway, the Isterfoss rapids, in relation to three nearby and two remote conspecific populations. Adults of this population emerge about a month earlier...

Data from: Long live the alien: is high genetic diversity a pivotal aspect of crested porcupine (Hystrix cristata) long-lasting and successful invasion?

Emiliano Trucchi, Benoit Facon, Paolo Gratton, Emiliano Mori, Nils Chr. Stenseth & Sissel Jentoft
Studying the evolutionary dynamics of an alien species surviving and continuing to expand after several generations can provide fundamental information on the relevant features of clearly successful invasions. Here, we tackle this task by investigating the dynamics of the genetic diversity in invasive crested porcupine (Hystrix cristata) populations, introduced to Italy about 1500 years ago, which are still growing in size, distribution range and ecological niche. Using genome-wide RAD markers, we describe the structure of...

Data from: Evolution of the immune system influences speciation rates in teleost fishes

Martin Malmstrøm, Michael Matschiner, Ole K. Tørresen, Bastiaan Star, Lars G. Snipen, Thomas F. Hansen, Helle T. Baalsrud, Alexander J. Nederbragt, Reinhold Hanel, Walter Salzburger, Nils C. Stenseth, Kjetill S. Jakobsen & Sissel Jentoft
Teleost fishes constitute the most species-rich vertebrate clade and exhibit extensive genetic and phenotypic variation, including diverse immune defense strategies. The genomic basis of a particularly aberrant strategy is exemplified by Atlantic cod, in which a loss of major histocompatibility complex (MHC) II functionality coincides with a marked expansion of MHC I genes. Through low-coverage genome sequencing (9–39×), assembly and comparative analyses for 66 teleost species, we show here that MHC II is missing in...

Data from: Interactive effects of exogenous and endogenous factors on demographic rates of an African rodent

Chloé R. Nater, Cindy I. Canale, Koen J. Van Benthem, Chi-Hang Yuen, Ivana Schoepf, Neville Pillay, Arpat Ozgul & Carsten Schradin
Exogenous and endogenous environmental factors can have simultaneous additive as well as interacting effects on life-history traits. Ignoring such interactions can lead to a biased understanding of variability in demographic rates and consequently population dynamics. These interactions have been the focus of decades-long debates on the mechanisms underlying small mammal population fluctuations. They have often been studied indirectly through seasonal effects, but studies considering them directly and more mechanistically are rare. We investigated the joint...

Data from: Linking intra- and interspecific assortative mating: consequences for asymmetric sexual isolation

Erik I. Svensson, Anna Nordén, John T. Waller & Anna Runemark
Assortative mating is of interest because of its role in speciation and the maintenance of species boundaries. However, we know little about how within-species assortment is related to interspecific sexual isolation. Most previous studies of assortative mating have focused on a single trait in males and females, rather than utilizing multivariate trait information. Here we investigate how intraspecific assortative mating relates to sexual isolation in two sympatric and congeneric damselfly species (genus Calopteryx). We connect...

Data from: Seedling recruitment in subalpine grassland forbs: predicting field regeneration behaviour from lab germination responses

Vigdis Vandvik, Reidar Elven & Joachim Töpper
Environmental cueing that restricts seed germination onto times and places where mortality risk is relatively low may have considerable selective advantage. The predictive power of lab germination responses for field regeneration behaviour is rarely tested. We screened 11 alpine grassland forbs for germination behaviours predictive of microsite and seasonal selectivity, and seed carry-over across years. The predictions were tested in a field experiment. Germination in the lab ranged from 0.05% to 67.9%, and was affected...

Data from: Phylogenomics of Lophotrochozoa with consideration of systematic error

Kevin M. Kocot, Torsten H. Struck, Julia Merkel, Damien S. Waits, Christiane Todt, Pamela M. Brannock, David A. Weese, Johanna T. Cannon, Leonid L. Moroz, Bernhard Lieb & Kenneth M. Halanych
Phylogenomic studies have improved understanding of deep metazoan phylogeny and show promise for resolving incongruences among analyses based on limited numbers of loci. One region of the animal tree that has been especially difficult to resolve, even with phylogenomic approaches, is relationships within Lophotrochozoa (the animal clade that includes molluscs, annelids, and flatworms among others). Lack of resolution in phylogenomic analyses could be due to insufficient phylogenetic signal, limitations in taxon and/or gene sampling, or...

Data from: Interspecific interactions through 2 million years: are competitive outcomes predictable?

Lee Hsiang Liow, Emanuela Di Martino, Kjetil Lysne Voje, Seabourne Rust & Paul D. Taylor
Ecological interactions affect the survival and reproduction of individuals. However, ecological interactions are notoriously difficult to measure in extinct populations, hindering our understanding of how the outcomes of interactions such as competition vary in time and influence long-term evolutionary changes. Here, the outcomes of spatial competition in a temporally continuous community over evolutionary timescales are presented for the first time. Our research domain is encrusting cheilostome bryozoans from the Wanganui Basin of New Zealand over...

Registration Year

  • 2016

Resource Types

  • Dataset


  • University of Oslo
  • University of Vienna
  • University of Agder
  • University of Bergen
  • University of Helsinki
  • Uppsala University
  • Norwegian University of Life Sciences
  • Oslo University Hospital
  • Lund University
  • Tohoku University