102 Works

Data from: A replicated climate change field experiment reveals rapid evolutionary response in an ecologically important soil invertebrate

Thomas Bataillon, Nicolas Galtier, Aurelien Bernard, Nicolai Cryer, Nicolas Faivre, Sylvain Santoni, Dany Severac, Theis N. Mikkelsen, Klaus S. Larsen, Claus Beier, Jesper G. Sørensen, Martin Holmstrup, Bodil Ehlers, Bodil K. Ehlers & Teis N. Mikkelsen
Whether species can respond evolutionarily to current climate change is crucial for the persistence of many species. Yet, very few studies have examined genetic responses to climate change in manipulated experiments carried out in natural field conditions. We examined the evolutionary response to climate change in a common annelid worm using a controlled replicated experiment where climatic conditions were manipulated in a natural setting. Analyzing the transcribed genome of 15 local populations, we found that...

Data from: Bottom trawling affects fish condition through changes in the ratio of prey availability to density of competitors

Jan Geert Hiddink, Joan Moranta, Stephen Balestrini, Marija Sciberras, Marine Cendrier, Rosie Bowyer, Michel J. Kaiser, Mattias Sköld, Patrik Jonsson, Francois Bastardie & Hilmar Hinz
Bottom-trawl fisheries are widespread and cause mortality of benthic invertebrates, which in turn may lead to a decrease in the availability of prey for target fish species. Exploitation also reduces the abundance of the fish species themselves. Modelling studies have shown that bottom trawling could lead to both increases and decreases in fish production, but so far empirical evidence to test these ideas has been very limited. We hypothesize that the effect of bottom trawling...

Data from: Reproductive isolation related to mimetic divergence in the poison frog Ranitomeya imitator

Evan Twomey, Jacob S. Vestergaard & Kyle Summers
In a mimetic radiation—when a single species evolves to resemble different model species—mimicry can drive within-species morphological diversification, and, potentially, speciation. While mimetic radiations have occurred in a variety of taxa, their role in speciation remains poorly understood. We study the Peruvian poison frog Ranitomeya imitator, a species that has undergone a mimetic radiation into four distinct morphs. Using a combination of colour–pattern analysis, landscape genetics and mate-choice experiments, we show that a mimetic shift...

Data from: The use of archived tags in retrospective genetic analysis of fish

Sara Bonanomi, Nina Overgaard Therkildsen, Rasmus Berg Hedeholm, Jakob Hemmer-Hansen & Einar Eg Nielsen
Collections of historical tissue samples from fish (e.g. scales and otoliths) stored in museums and fisheries institutions are precious sources of DNA for conducting retrospective genetic analysis. However, in some cases only external tags used for documentation of spatial dynamics of fish populations have been preserved. Here we test the usefulness of fish tags as a source of DNA for genetic analysis. We extract DNA from historical tags from cod collected in Greenlandic waters between...

Data from: Microevolution in time and space: SNP analysis of historical DNA reveals dynamic signatures of selection in Atlantic cod

Nina O. Therkildsen, Jakob Hemmer-Hansen, Thomas D. Als, Douglas P. Swain, M. Joanne Morgan, Edward A. Trippel, Stephen R. Palumbi, Dorte Meldrup & Einar E. Nielsen
Little is known about how quickly natural populations adapt to changes in their environment and how temporal and spatial variation in selection pressures interact to shape patterns of genetic diversity. We here address these issues with a series of genome scans in four overfished populations of Atlantic cod (Gadus morhua) studied over an 80-year period. Screening of >1000 gene-associated single-nucleotide polymorphisms (SNPs) identified 77 loci that showed highly elevated levels of differentiation, likely as an...

Data from: Rapid shifts in the thermal sensitivity of growth but not development rate causes temperature-size response variability during ontogeny in arthropods

Curtis R. Horne, Andrew G. Hirst, David Atkinson, Rodrigo Almeda & Thomas Kiørboe
Size at maturity in ectotherms commonly declines with warming. This near-universal phenomenon, formalised as the temperature-size rule, has been observed in over 80% of tested species, from bacteria to fish. The proximate cause has been attributed to the greater temperature dependence of development rate than growth rate, causing individuals to develop earlier but mature smaller in the warm. However, few studies have examined the ontogenetic progression of the temperature-size response at high resolution. Using marine...

Data from: Parallel evolution and adaptation to environmental factors in a marine flatfish: implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus)

Fernanda Dotti Do Prado, Manuel Vera, Miguel Hermida, Carmen Bouza, Belén G. Pardo, Román Vilas, Andrés Blanco, Carlos Fernández, Francesco Maroso, Gregory E. Maes, Cemal Turan, Filip A.M. Volckaert, John B. Taggart, Adrian Carr, Rob Ogden, Einar E. Nielsen, The Aquatrace Consortium, Paulino Martínez & Filip A. M. Volckaert
Unraveling adaptive genetic variation represents, in addition to the estimate of population demographic parameters, a cornerstone for the management of aquatic natural living resources, which in turn, represent the raw material for breeding programs. The turbot (Scophthalmus maximus) is a marine flatfish of high commercial value living on the European continental shelf. While wild populations are declining, aquaculture is flourishing in Southern Europe. We evaluated the genetic structure of turbot throughout its natural distribution range...

Data from: Hypoxic areas, density-dependence and food limitation drive the body condition of a heavily exploited marine fish predator

Michele Casini, Filip Käll, Martin Hansson, Maris Plikshs, Tatjana Baranova, Olle Karlsson, Karl Lundström, Stefan Neuenfeldt, Anna Gardmark & Joakim Hjelm
Investigating the factors regulating fish condition is crucial in ecology and the management of exploited fish populations. The body condition of cod (Gadus morhua) in the Baltic Sea has dramatically decreased during the past two decades, with large implications for the fishery relying on this resource. Here, we statistically investigated the potential drivers of the Baltic cod condition during the past 40 years using newly compiled fishery-independent biological data and hydrological observations. We evidenced a...

Data from: The evolution of competitive ability for essential resources

Joey R. Bernhardt, Pavel Kratina, Aaron Pereira, Manu Tamminen, Mridul K. Thomas & Anita Narwani
Competition for limiting resources is among the most fundamental ecological interactions and has long been considered a key driver of species coexistence and biodiversity. Species' minimum resource requirements, their R*s, are key traits that link individual physiological demands to the outcome of competition. However, a major question remains unanswered - to what extent are species’ competitive traits able to evolve in response to resource limitation? To address this knowledge gap, we performed an evolution experiment...

HLA Class II specificity assessed by high-density peptide microarray interactions

Thomas Osterbye, Morten Nielsen, Nadine L. Dudek, Sri H. Ramarathinam, Anthony W. Purcell, Claus Schafer-Nielsen & Soren Buus
The ability to predict and/or identify MHC binding peptides is an essential component of T cell epitope discovery; something that ultimately should benefit the development of vaccines and immunotherapies. In particular, MHC class I (MHC-I) prediction tools have matured to a point where accurate selection of optimal peptide epitopes is possible for virtually all MHC-I allotypes; in comparison, current MHC class II (MHC-II) predictors are less mature. Since MHC-II restricted CD4+ T cells control and...

Life history traits and abundance of Northeast Atlantic fish

Anna Rindorf
Life history characteristics such as asymptotic length L∞, growth rate K, the length at which 50% of the individuals have reached maturity Lmat, and natural mortality M are therefore often used to indicate the sensitivity of different species to fishing. When species-specific information is missing, an estimate of the maximum length Lmax of a species can be used to infer asymptotic length, growth rate, natural mortality, and proportion mature at length. Here, we provide a...

The effect of temperature on appetite in fish

Fredrik Jutfelt, Tommy Norin, Eirik Åsheim, Lauren Rowsey, Anna Andreassen, Rachael Morgan, Timothy Clark & Ben Speers-Roesch
Temperature has a dramatic effect on the physiology of ectothermic animals, impacting most of their biology. When temperatures increase above optimal for an animal, their growth gradually decreases. The main mechanism behind this growth rate reduction is unknown. Here, we suggest the ‘aerobic scope protection’ hypothesis as a mechanistic explanation for the reduction in growth. After a meal, metabolic rate, and hence oxygen consumption rate, transiently increases in a process called specific dynamic action (SDA)....

The biomolecular characterisation of a finger ring contextually dated to the emergence of the Early Neolithic from Syltholm, Denmark

Theis Jensen, Meaghan Mackie, Alberto Taurozzi, Liam Lannigan, Carsten Gundelach, Jesper Olsen, Søren Sørensen, Matthew Collins, Mikkel Sørensen & Hannes Schroeder
We present the analysis of an osseous finger ring from a predominantly early Neolithic context in Denmark. To characterise the artefact and identify the raw material used for its manufacture, we performed micro-computed tomography (Micro CT) scanning, zooarchaeology by mass spectrometry (ZooMS) peptide mass fingerprinting, as well as protein sequencing by liquid chromatography tandem mass spectrometry (LC-MS/MS). We conclude that the ring was made from long bone or antler due to the presence of osteons...

New Magnetic Field Models of the Moon

Dhananjay Ravat, Michael Purucker & Nils Olsen
We use L1-norm model regularization of |Br| component at the surface on magnetic monopoles bases and along-track magnetic field differences alone (without vector observations) to derive high quality global magnetic field models at the surface of the Moon. The practical advantages to this strategy are: monopoles are more stable at closer spacing in comparison to dipoles, improving spatial resolution; L1-norm model regularization leads to sparse models which may be appropriate for the Moon which has...

Perdigão: ortophotos in 5cm and 20cm resolution

José Laginha Palma, Vasco Batista, Vitor Costa Gomes, João Correia Lopes, Jakob Mann & Ebba Dellwik

Processed airborne radio-echo sounding data from the POLARGAP survey covering the South Pole, and Foundation and Recovery Glaciers, East Antarctica (2015/2016)

Fausto Ferraccioli, Rene Forsberg, Kenichi Matsuoka, Arne Olesen, Tom Jordan, Hugh Corr, Carl Robinson & Jack Kohler
During the austral summer of 2015/16, a major international collaboration funded by the European Space Agency (ESA) and with in-kind contribution from the British Antarctic Survey, the Technical University of Denmark (DTU), the Norwegian Polar Institute (NPI) and the US National Science Foundation (NSF), acquired ~38,000 line km of aerogeophysical data. The primary objective of the POLARGAP campaign was to carry out an airborne gravity survey covering the southern polar gap of the ESA gravity...

Data from: Imprints from genetic drift and mutation imply relative divergence times across marine transition zones in a pan-European small pelagic fish (Sprattus sprattus)

Morten T. Limborg, Reinhold Hanel, Paul V. Debes, Anna-Karin Ring, Costas S. Tsigenopoulos, Dorte Bekkevold & Carl Andre
Geographic distributions of most temperate marine fishes are affected by post-glacial recolonisation events which have left complex genetic imprints on populations of marine species. This study investigated population structure and demographic history of European sprat (Sprattus sprattus L.) by combining inference from both mtDNA and microsatellite genetic markers throughout the species distribution. We compared effects from genetic drift and mutation for both genetic markers in shaping genetic differentiation across four transition zones. Microsatellite markers revealed...

Data from: Range-wide genomic data synthesis reveals transatlantic vicariance and secondary contact in Atlantic cod

Robert Fairweather, Ian R. Bradbury, Sarah J. Heylar, Mark De Bruyn, Nina O. Therkildsen, Paul Bentzen, Jakob Hemmer-Hansen & Gary R. Carvalho
Recent advances in genetic and genomic analysis have greatly improved our understanding of spatial population structure in marine species. However, studies addressing phylogeographic patterns at oceanic spatial scales remain rare. In Atlantic cod (Gadus morhua), existing range‐wide examinations suggest significant transatlantic divergence, although the fine‐scale contemporary distribution of populations and potential for secondary contact are largely unresolved. Here, we explore transatlantic phylogeography in Atlantic cod using a data‐synthesis approach, integrating multiple genome‐wide single‐nucleotide polymorphism (SNP)...

Data from: Catastrophic dynamics limit Atlantic cod recovery

Camilla Sguotti, Saskia Otto, Romain Frelat, Tom Langbehn, Marie Plambech Ryberg, Martin Lindegren, Joel Durant, Nils Stenseth & Christian Möllmann
Collapses and regime changes are pervasive in complex systems (such as marine ecosystems) governed by multiple stressors. The demise of Atlantic cod (Gadus morhua) stocks constitutes a text book example of the consequences of overexploiting marine living resources, yet the drivers of these nearly synchronous collapses are still debated. Moreover, it is still unclear why rebuilding of collapsed fish stocks such as cod is often slow or absent. Here we apply the stochastic cusp model,...

Data from: Transgenerational interactions between pesticide exposure and warming in a vector mosquito

Tam T. Tran, Lizanne Janssens, Khuong V. Dinh & Robby Stoks
While transgenerational plasticity may buffer ectotherms to warming and pesticides separately, it remains unknown how combined exposure to warming and pesticides in the parental generation shapes the vulnerability to these stressors in the offspring. We studied the transgenerational effects of single and combined exposure to warming (4°C increase) and the pesticide chlorpyrifos on life history traits of the vector mosquito Culex pipiens. Parental exposure to a single stressor, either warming or the pesticide, had negative...

Data from: Whole genome-sequencing and phylogenetic analysis of a historical collection of Bacillus anthracis strains from Danish cattle

Sylviane Derzelle, Guillaume Girault, Branko Kokotvic, Øystein Angen & Branko Kokotovic
Bacillus anthracis, the causative agent of anthrax, is known as one of the most genetically monomorphic species. Canonical single-nucleotide polymorphism (SNP) typing and whole-genome sequencing were used to investigate the molecular diversity of eleven B. anthracis strains isolated from cattle in Denmark between 1935 and 1988. Danish strains were assigned into five canSNP groups or lineages, i.e. A.Br.001/002 (n = 4), A.Br.Ames (n = 2), A.Br.008/011 (n = 2), A.Br.005/006 (n = 2) and A.Br.Aust94...

Data from: Enhanced computational methods for quantifying the effect of geographic and environmental isolation on genetic differentiation

Gilles Guillot, Filippo Botta, Capser Eriksen & Michaël C. Fontaine
1. In a recent paper, Bradburd et al. (Evolution, 67, 2013, 3258) proposed a model to quantify the relative effect of geographic and environmental distance on genetic differentiation. Here, we enhance this method in several ways. 2. We modify the covariance model so as to fit better with mainstream geostatistical models and avoid mathematically ill-behaved covariance functions. We extend the model – initially implemented only for co-dominant bi-allelic markers such as single nucleotide polymorphisms –...

Data from: The impact of resources for clinical surveillance on the control of a hypothetical foot-and-mouth disease epidemic in Denmark

Tariq Halasa & Anette Boklund
The objectives of this study were to assess whether current surveillance capacity is sufficient to fulfill EU and Danish regulations to control a hypothetical foot-and-mouth disease (FMD) epidemic in Denmark, and whether enlarging the protection and/or surveillance zones could minimize economic losses. The stochastic spatial simulation model DTU-DADS was further developed to simulate clinical surveillance of herds within the protection and surveillance zones and used to model spread of FMD between herds. A queuing system...

Data from: A genomic island linked to ecotype divergence in Atlantic cod

Jakob Hemmer-Hansen, Einar E. Nielsen, Nina O. Therkildsen, Martin I. Taylor, Rob Ogden, Audrey J. Geffen, Dorte Bekkevold, Sarah Helyar, Christophe Pampoulie, Torild Johansen & Gary R. Carvalho
The genomic architecture underlying ecological divergence and ecological speciation with gene flow is still largely unknown for most organisms. One central question is whether divergence is genome-wide or localized in “genomic mosaics” during early stages when gene flow is still pronounced. Empirical work has so far been limited, and the relative impacts of gene flow and natural selection on genomic patterns have not been fully explored. Here, we use ecotypes of Atlantic cod to investigate...

Data from: Genetic analyses reveal complex dynamics within a marine fish management area

Jakob Hemmer-Hansen, Karin Hüssy, Henrik Baktoft, Bastian Huwer, Dorte Bekkevold, Holger Haslob, Jens-Peter Herrmann, Hans-Harald Hinrichsen, Uwe Krumme, Henrik Mosegaard, Einar Eg Nielsen, Thorsten B.H. Reusch, Marie Storr-Paulsen, Andres Velasco, Burkhard Von Dewitz, Jan Dierking & Margit Eero
Genetic data have great potential for improving fisheries management by identifying the fundamental management units – i.e. the biological populations - and their mixing. However, so far the number of practical cases of marine fisheries management using genetics has been limited. Here, we used Atlantic cod in the Baltic Sea to demonstrate the applicability of genetics to a complex management scenario involving mixing of two genetically divergent populations. Specifically, we addressed several assumptions used in...

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  • Technical University of Denmark
  • Aarhus University
  • Swiss Federal Institute of Aquatic Science and Technology
  • Lund University
  • University of Copenhagen
  • Bangor University
  • Marine Research Institute
  • Grønlands Naturinstitut
  • Spanish Institute of Oceanography
  • University of Gothenburg