54 Works

Macronutrient niches and field limitation in a woodland assemblage of harvestmen

Søren Nielsen, Trine Bilde & Søren Toft
1. Description of animals’ trophic niches help us understand interactions between species in biological communities that are not easily observed. Analyses of macronutrient niches, i.e. the range of macronutrient (protein:lipid:carbohydrate) ratios selected by generalist feeders, may be a useful alternative approach to inter-species comparisons of diets, especially within taxonomic assemblages of predators where species with similar nutritional requirements are likely to accept similar types of prey. 2. Here we analysed the macronutritional niches of a...

Echolocation activity of harbour porpoises, Phocoena phocoena, show seasonal artificial reef attraction despite elevated noise levels close to oil and gas platforms

Jonas Teilmann
Harbour porpoises frequently alter their behaviour in response to underwater sound from shipping, seismic surveys, drilling and marine renewables. Less well understood is the response of porpoises to sounds emitted from oil and gas (O&G) platforms during routine operations. The responses are not easily predictable as platforms can act simultaneously and to varying degree as a source of disturbance through noise and attraction through an artificial reef effect with increased prey abundance and diversity. To...

Detecting flying insects using car nets and DNA metabarcoding

Cecilie Svenningsen, Tobias Guldberg Frøslev, Jesper Bladt, Lene Bruhn Pedersen, Jonas Colling Larsen, Rasmus Ejrnæs, Camilla Fløjgaard, Anders Hansen, Jacob Heilmann-Clausen, Robert Dunn & Anders Tøttrup
Monitoring insects across space and time is challenging, due to their vast taxonomic and functional diversity. This study demonstrates how nets mounted on rooftops of cars (car nets) and DNA metabarcoding can be applied to sample flying insect richness and diversity across large spatial scales within a limited time period. During June 2018, 365 car net samples were collected by 151 volunteers during two daily time intervals on 218 routes in Denmark. Insect bulk samples...

Data from: Warming and eutrophication interactively drive changes in the methane-oxidizing community of shallow lakes

Thomas P.A. Nijman, Thomas A. Davidson, Stefan T.J. Weideveld, Joachim Audet, Chiara Esposito, Eti E. Levi, Adrian Ho, Leon P.M. Lamers, Erik Jeppesen & Annelies J. Veraart
Freshwater ecosystems are the largest natural source of the greenhouse gas methane (CH4), with shallow lakes a particular hot spot. Eutrophication and warming generally increase lake CH4 emissions but their impacts on the sole biological methane sink - methane oxidation - and methane-oxidizer community dynamics are poorly understood. We used the world’s longest-running freshwater climate-change mesocosm experiment to determine how methane-oxidizing bacterial (MOB) abundance and composition, and methane oxidation potential in the sediment respond to...

Detecting purging of inbreeding depression by a slow rate of inbreeding for various traits: the impact of environmental and experimental conditions

Mads Fristrup Schou, Jørgen Bundgaard, Volker Loeschcke &
Inbreeding depression (ID) has since long been recognized as a significant factor in evolutionary biology. It is mainly the consequence of (partially) recessive deleterious mutations maintained by mutation-selection balance in large random mating populations. When population size is reduced, recessive alleles are increasingly found in homozygous condition due to drift and inbreeding and become more prone to selection. Particularly at slow rates of drift and inbreeding, selection will be more effective in purging such alleles,...

Data from: Genetic polymorphisms in COMT and BDNF influence synchronization dynamics of human neuronal oscillations

Felix Siebenhühner, Jaana Simola, Vladislav Myrov, Katri Kantojärvi, Tiina Paunio, J. Matias Palva, Elvira Brattico & Satu Palva
Neuronal oscillations, their inter-areal synchronization and scale-free dynamics constitute fundamental mechanisms for cognition by regulating neuronal communication. These oscillatory dynamics have large inter-individual variability that is partly heritable. However, the genetic underpinnings of oscillatory dynamics have remained poorly understood. We investigated whether local and global oscillation dynamics were influenced by polymorphisms in Catechol-O-methyltransferase (COMT) Val158Met and brain-derived neurotrophic factor (BDNF) Val66Met genes that regulate brain catecholaminergic and serotonergic levels. Resting-state magnetoencephalography (MEG) was recorded from...

Ascorbic acid supports ex vivo generation of plasmacytoid dendritic cells from circulating hematopoietic stem cells: RNA-seq dataset

Rasmus Bak & Anders Laustsen
Plasmacytoid dendritic cells (pDCs) constitute a rare type of immune cell with multifaceted functions, but their potential use as a cell-based immunotherapy is challenged by the scarce cell numbers that can be extracted from blood. Here, we systematically investigate culture parameters for generating pDCs from hematopoietic stem and progenitor cells (HSPCs). Using optimized conditions combined with implementation of HSPC pre-expansion, we generate an average of 465 million HSPC-derived pDCs (HSPC-pDCs) starting from 100,000 cord blood-derived...

Data from: Overall dynamic body acceleration measures activity differently on large vs small aquatic animals

Lucía Martina Martín López, Natacha Aguilar De Soto, Peter Teglberg Madsen & Mark Johnson
Acceleration-based proxies for activity and energy expenditure are widely used in bio-logging studies of animal movement and locomotion to explore biomechanical strategies, energetic costs of behaviour, habitat use and the impact of anthropogenic disturbance. The foremost such proxy is Overall Dynamic Body Acceleration (ODBA) along with variants VeDBA and PDBA. This technique, which involves summing the magnitude of high-pass-filtered acceleration signals (the so-called dynamic acceleration) over a reference interval, has been applied to animals as...

Different pollination approaches to compare the seed set of diploid and tetraploid red clover (Trifolium pratense L.)

Shuxuan Jing, Per Kryger & Birte Boelt
In red clover seed production, low seed yield is limiting the commercial exploitation of tetraploid red clover. To explore if pollination is the limiting factor for the seed yield in tetraploid red clover, we investigated pollinator behaviour and plant reproductive success in diploid (2x) cultivar ‘Rajah’ and tetraploid (4x) cultivar ‘Amos’ using honey bee and hand pollination approaches. We measured the seed set at the flower head level with the increasing visitation rate in honey...

Raw cutadapt miseq output - minibarcode 18S-V7 of macroalgae

Sarah Ørberg
Macroalgae are key primary producers in North Atlantic and Arctic coastal ecosystems, and tracing their fate and distribution is vital to improve our understanding of their ecological role and provision of ecosystem services. Recent advances from environmental DNA (eDNA) have added a new capacity to fingerprint and trace macroalgae. However, further development of resources for amplifying and identifying macroalgal eDNA are much needed. Here, we examined the performance in terms of resolution and specificity of...

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...

MetaComNet: A random forest-based framework for making spatial prediction of plant-pollinator interactions

Markus Arne Kjær Sydenham, Zander Venter, Trond Reitan, Claus Rasmussen, Astrid Skrindo, Daniel Skoog, Kaj-Andreas Hanevik, Stein Joar Hegland, Yoko Dupont, Anders Nielsen, Joseph Chipperfield & Graciela Rusch
1. Predicting plant-pollinator interaction networks over space and time will improve our understanding of how environmental change is likely to impact the functioning of ecosystems. Here we propose a framework for producing spatially explicit predictions of the occurrence and number of pairwise plant-pollinator interactions and of the species richness, diversity, and abundance of pollinators visiting flowers. We call the framework ‘MetaComNet’ because it aims to link metacommunity dynamics to the assembly of ecological networks. 2....

Data for: Parasitoids indicate major climate-induced shifts in Arctic communities

Tuomas Kankaanpää, Eero Vesterinen, Bess Hardwick, Niels Martin Martin Schmidt, Tommi Andersson, Paul Eric Aspholm, Isabel Barrio, Niklas Beckers, Joël Bêty, Tone Birkemoe, Melissa DeSiervo, Katherine Drotos, Dorothee Ehrich, Olivier Gilg, Vladimir Gilg, Nils Hein, Toke Høye, Kristian Jakobsen, Camille Jodouin, Jesse Jorna, Mikhail Kozlov, Jean-Claude Kresse, Don-Jean Leandri-Breton, Nicolas Lecomte, Maia Olsen … & Tomas Roslin
Climatic impacts are especially pronounced in the Arctic, which as a region is warming twice as fast as the rest of the globe. Here, we investigate how mean climatic conditions and rates of climatic change impact parasitoid insect communities in 16 localities across the Arctic. We focus on parasitoids in a wide-spread habitat, Dryas heathlands, and describe parasitoid community composition in terms of larval host use (i.e. parasitoid use of herbivorous Lepidoptera versus pollinating Diptera)...

Plant community data for European ecoregions

Jose A. Capitan, Sara Cuenda, Alejandro Ordoñez & David Alonso
Patterns in macroecology are related to species occurrence across meaningful spatial and temporal scales. The dataset provided here reports species distribution data (presence-absence) for herbaceous plants across a number of European habitats (ecoregions). Species occurrence is accompanied by the corresponding plant's maximun stem height values. This dataset has been used to unveil patterns of herbaceous plant height clustering in mid-latitude European ecoregions. Presence-absence data for herbaceous plants were drawn from Atlas Florae Europaeae (Jalas &...

Data from: Using singleton densities to detect recent selection in Bos taurus

Matthew Hartfield, Nina Aagaard Poulsen, Bernt Guldbrandtsen & Thomas Bataillon
Many quantitative traits are subject to polygenic selection, where several genomic regions undergo small, simultaneous changes in allele frequency that collectively alter a phenotype. The widespread availability of genome data, along with novel statistical techniques, has made it easier to detect these changes. We apply one such method, the ‘Singleton Density Score’, to the Holstein breed of Bos taurus to detect recent selection (arising up to around 740 years ago). We identify several genes as...

Irreproducibility in searches of scientific literature: a comparative analysis

Gabor Pozsgai, Gabor Lövei, Liette Vasseur, Geoff Gurr, Péter Batáry, Janos Korponai, Nick Littlewood, Jian Liu, Arnold Móra, John Obrycki, Olivia Reynolds, Jenni Stockan, Heather VanVolkenburg, Jie Zhang, Wenwu Zhou & Minsheng You
1. Repeatability is the cornerstone of science and it is particularly important for systematic reviews. However, little is known on how researchers’ choice of database and search platform influence the repeatability of systematic reviews. Here, we aim to unveil how the computer environment and the location where the search was initiated from influence hit results. 2. We present a comparative analysis of time-synchronized searches at different institutional locations in the world, and evaluate the consistency...

A comprehensive phylogenomic platform for exploring the angiosperm tree of life

William Baker, Paul Bailey, Vanessa Barber, Abigail Barker, Sidonie Bellot, David Bishop, Laura Botigue, Grace Brewer, Tom Carruthers, James Clarkson, Jeffrey Cook, Robyn Cowan, Steven Dodsworth, Niroshini Epitawalage, Elaine Françoso, Berta Gallego, Matthew Johnson, Jan Kim, Kevin Leempoel, Olivier Maurin, Catherine McGinnie, Lisa Pokorny, Shyamali Roy, Malcolm Stone, Eduardo Toledo … & Félix Forest
The tree of life is the fundamental biological roadmap for navigating the evolution and properties of life on Earth, and yet remains largely unknown. Even angiosperms (flowering plants) are fraught with data gaps, despite their critical role in sustaining terrestrial life. Today, high-throughput sequencing promises to significantly deepen our understanding of evolutionary relationships. Here, we describe a comprehensive phylogenomic platform for exploring the angiosperm tree of life, comprising a set of open tools and data...

Data and code from: Accounting for species interactions is necessary for predicting how arctic arthropod communities respond to climate change

Nerea Abrego, Tomas Roslin, Tea Huotari, Yinqiu Ji, Niels Martin Schmid, Jiaxin Wang, Douglas W. Yu & Otso Ovaskainen
Species interactions are known to structure ecological communities. Still, the influence of climate change on biodiversity has primarily been evaluated by correlating individual species distributions with local climatic descriptors, then extrapolating into future climate scenarios. We ask whether predictions on arctic arthropod response to climate change can be improved by accounting for species interactions. For this, we use a 14-year-long, weekly time series from Greenland, resolved to the species level by mitogenome mapping. During the...

Eiders, nutrients and eagles: Bottom-up and top-down population dynamics in a marine bird_dataset

Federico Morelli, Karsten Laursen, Marek Svitok, Yanina Benedetti & Anders Pape Møller
The main objective of this long-term study (1978-2016) was to find the underlying factors behind the declining trends of eider Somateria mollissima in the Baltic/Wadden Sea. Specifically, we aimed at quantifying the bottom-up effect of nutrients, through mussel stocks, on reproduction and abundance of eider, and the top-down effects caused by white-tailed eagle Haliaeetus albicilla predation. Bottom-up effects increase marine primary productivity with subsequent effects on food availability for a major mussel predator. Top-down effects...

Data on infection experiments of cane toads

Martin Mayer, Lia Schlippe Justicia, Richard Shine & Gregory Brown
This dataset contains data from an infection experiment described in the paper: “Mayer, M., Schlippe Justicia, L, Shine, R., & Brown, G. P. (2021). Host defense or parasite cue: Skin secretions mediate interactions between amphibians and their parasites. Ecology Letters, in revision”. Amphibian skin secretions (substances produced by the amphibian plus microbiota) plausibly act as a first line of defense against parasite/pathogen attack, but may also provide chemical cues for pathogens. To clarify the role...

Hare disturbance GPS data

Martin Mayer, Lars Haugaard & Peter Sunde
Capture and handling of wildlife is an important component of wildlife studies, and hunting can be a central tool for wildlife management. However, human-caused disturbance of animals can cause various negative effects on individuals. Thus, an increased understanding of different disturbances on animals will allow improved mitigation of human stressors for wildlife, and provides the basis for data‐censoring when using information obtained from captured individuals. Here, we investigated the effects of capture and handling, as...

Rewetting does not return drained fen peatlands to their old selves

Juergen Kreyling, Franziska Tanneberger, Florian Jansen, Sebastian Van Der Linden, Camiel Aggenbach, Volker Blüml, John Couwenberg, Willem-Jan Emsens, Hans Joosten, Agatha Klimkowska, Wiktor Kotowski, Lukasz Kozub, Bernd Lennartz, Yvonne Liczner, Haojie Liu, Dierk Michaelis, Claudia Oehmke, Karsten Parakenings, Elisabeth Pleyl, Arne Poyda, Stefanie Raabe, Markus Röhl, Kirsten Rücker, Anett Schneider, Joachim Schrautzer … & Gerald Jurasinski
Peatlands, in particular groundwater-fed fens of the temperate zone, have been drained for agriculture, forestry and peat extraction for a long time and on a large scale. Drainage turns peatlands from a carbon and nutrient sink into a respective source, diminishes water regulation capacity at the landscape scale, causes continuous surface height loss and destroys their typical biodiversity. Over the last decades, drained peatlands have been rewetted for biodiversity restoration and, as it strongly decreases...

Echolocating toothed whales use ultra-fast echo-kinetic responses to track evasive prey

Heather Vance, Peter Madsen, Natacha Aguilar De Soto, Danuta Wisniewska, Michael Ladegaard, Sascha Hooker & Mark Johnson
Visual predators rely on fast-acting optokinetic responses to track and capture agile prey. Most toothed whales, however, rely on echolocation for hunting and have converged on biosonar clicking rates reaching 500/s during prey pu rsuits. If echoes are processed on a click by click basis, as assumed, neural responses 100x faster than those in vision are required to keep pace with this information flow. Using high resolution bio-logging of wild predator prey interactions we show...

Data from: Holocene lake phosphorus species and primary producers reflect catchment processes in a small, temperate lake

Anna-Marie Klamt, Sofie P. Poulsen, Bent V. Odgaard, Thomas Hübener, Suzanne McGowan, Henning S. Jensen & Kasper Reitzel
This palaeo data set consists of a Holocene record from a small, temperate lake (Lake Fuglsø, Denmark). It comprises radiocarbon (14C)-dating, pollen, X-ray fluorescence scanning, carbon and nitrogen (contents and stable isotopes), phosphorus (P) pools (from sequential P extraction and 31P nuclear magnetic resonance spectroscopy), pigment, diatom, and plant macrofossil data. Our multi-proxy palaeolimnological study aimed to investigate how natural processes and anthropogenic land-use changes have affected sedimentary P forms and primary producers. We found...

Data from: Wintering bird communities are tracking climate change faster than breeding communities

Aleksi Lehikoinen, Åke Lindström, Andrea Santangeli, Päivi Sirkiä, Lluis Brotons, Vincent Devictor, Jaanus Elts, Ruud P. B. Fobben, Henning Heldbjerg, Sergi Herrando, Marc Herremans, Marie-Anne R. Hudson, Frederic Jiguet, Alison Johnston, Romain Lorrilliere, Emma-Liina Marjakangas, Nicole L. Michel, Charlotte M. Moshøj, Renno Nellis, Jean-Yves Paquet, Adam C. Smith, Tibor Szep & Chris Van Turnhout
1. Global climate change is driving species’ distributions towards the poles and mountain tops during both non-breeding and breeding seasons, leading to changes in the composition of natural communities. However, the degree of season differences in climate-driven community shifts has not been thoroughly investigated at large spatial scales. 2. We compared the rates of change in the community composition during both winter (non-breeding season) and summer (breeding) and their relation to temperature changes. 3. Based...

Registration Year

  • 2021
    54

Resource Types

  • Dataset
    54

Affiliations

  • Aarhus University
    54
  • University of Helsinki
    4
  • University of La Laguna
    3
  • University of Copenhagen
    3
  • University of the Basque Country
    2
  • Sun Yat-sen University
    2
  • Zhejiang University
    2
  • Lund University
    2
  • University of Groningen
    2
  • University of Picardie Jules Verne
    2