315 Works

Data from: Silica Particles with Encapsulated DNA as trophic tracers

Carlos Andrea Mora, Daniela Paunescu, Robert Nikolaus Grass & Wendelin Jan Stark
Ecological networks such as food webs are extremely complex and can provide important information about the robustness and productivity of an ecosystem. In most cases it is not feasible to observe trophic interactions between predators and prey directly and with the available methods it is difficult to quantify the connections between them. Here we show that submicron-sized Silica Particles (100 – 150 nm) with Encapsulated DNA (SPED) enable accurate food and organism labeling and quantification...

Data from: Natural selection on immune defense: a field experiment

Laura Langeloh, Jasminca Maria Behrmann-Godel, Otto Seppälä & Jasminca Behrmann-Godel
Predicting the evolution of phenotypic traits requires an understanding of natural selection on them. Despite its indispensability in the fight against parasites, selection on host immune defense has remained understudied. Theory predicts immune traits to be under stabilizing selection due to associated trade-offs with other fitness-related traits. Empirical studies, however, report mainly positive directional selection. This discrepancy could be caused by low phenotypic variation in the examined individuals and/or variation in host resource level that...

Data from: Do soil biota influence the outcome of novel interactions between plant competitors?

Aline Cardinaux, Simon Hart, Jake Alexander, Jake M. Alexander & Simon P. Hart
1. Species are shifting their ranges, for example to higher elevations, in response to climate change. Different plant species and soil microbiota will likely shift their ranges at different rates, giving rise to novel communities of plants and soil organisms. However, the ecological consequences of such novel plant-soil interactions are poorly understood. We experimentally simulated scenarios for novel interactions arising between high- and low elevation plants and soil biota following asynchronous climate change range shifts,...

Data from: An experimental study of strong reciprocity in bacteria

R. Fredrik Inglis, Stuart West & Angus Buckling
Strong reciprocity, whereby cooperators punish non-cooperators, may help to explain the evolutionary success of cooperative behaviours. However, theory suggests that selection for strong reciprocity can depend upon tight genetic linkage between cooperation and punishment, to avoid the strategy being outcompeted by non-punishing cooperators. We tested this hypothesis using experimental populations of the bacterium Pseudomonas aeruginosa, which cooperate by producing iron-scavenging siderophores and, in this context, punish non-cooperators with toxins. Consistent with theory, we show that...

Data from: Simplification of shade tree diversity reduces nutrient cycling resilience in coffee agroforestry

Maike Nesper, Christoph Kueffer, Smitha Krishnan, Cheppudira G. Kushalappa & Jaboury Ghazoul
1. Agroforestry systems are refuges for biodiversity and provide multiple ecosystem functions and services. Diverse multispecies shade tree canopies are increasingly replaced by monospecific shade, often dominated by non-native tree species. The loss of tree diversity and the nature of the dominating tree can have strong implications for ecosystem functions, e.g. nutrient cycling ultimately reducing crop production. 2. To understand direct and indirect impacts of shade trees on nutrient cycling and crop production, we studied...

Data from: Worldwide population genetic structure of the oriental fruit moth (Grapholita molesta), a globally invasive pest

Heather Kirk, Silvia Dorn & Dominique Mazzi
Background: Invasive pest species have large impacts on agricultural crop yields, and understanding their population dynamics is important for ensuring food security. The oriental fruit moth Grapholita molesta is a cosmopolitan pest of stone and pome fruit species including peach and apple, and historical records indicate that it has invaded North and South America, Europe, Australia and Africa from its putative native range in Asia over the past century. Results: We used 13 microsatellite loci,...

Data from: Manipulation of light spectral quality disrupts host location and attachment by parasitic plants in the genus Cuscuta

Beth I. Johnson, Consuelo M. De Moraes & Mark C. Mescher
Parasitic plants in the genus Cuscuta (dodders) make their living by extracting resources from other plants. While relatively few dodder species are agricultural pests, those that are can be challenging to control, in part due to their intimate physical and physiological association with host plants. Consequently, dodders remain pervasive and economically damaging pests in a variety of crop systems. The development of improved management strategies would be facilitated by greater understanding of the ecological and...

Data from: Cryptic lineages of a common alpine mayfly show strong life-history divergence

Marie Leys, Irene Keller, Christopher T. Robinson & Katja Räsänen
Understanding ecological divergence of morphologically similar but genetically distinct species – previously considered as a single morphospecies – is of key importance in evolutionary ecology and conservation biology. Despite their morphological similarity, cryptic species may have evolved distinct adaptations. If such ecological divergence is unaccounted for, any predictions about their responses to environmental change and biodiversity loss may be biased. We used spatio-temporally replicated field surveys of larval cohort structure and population genetic analyses (using...

The response of the ozone layer to quadrupled CO2 concentrations: implications for climate

Gabriel Chiodo & Lorenzo M. Polvani
The quantification of the climate impacts exerted by stratospheric ozone changes in abrupt 4 × CO2 forcing experiments is an important step in assessing the role of the ozone layer in the climate system. Here, we build on our previous work on the change of the ozone layer under 4 × CO2 and examine the effects of ozone changes on the climate response to 4 × CO2, using the Whole Atmosphere Community Climate Model. We...

Data from: An SNP-based second-generation genetic map of Daphnia magna and its application to QTL analysis of phenotypic traits

Jarkko Routtu, Matthew D. Hall, Brian Albere, Christian Beisel, R. Daniel Bergeron, Anurag Chaturvedi, Jeong-Hyeon Choi, John Colbourne, Luc De Meester, Melissa T. Stephens, Claus-Peter Stelzer, Eleanne Solorzano, W. Kelley Thomas, Michael E. Pfrender & Dieter Ebert
Background: Although Daphnia is increasingly recognized as a model for ecological genomics and biomedical research, there is, as of yet, no high-resolution genetic map for the genus. Such a map would provide an important tool for mapping phenotypes and assembling the genome. Here we estimate the genome size of Daphnia magna and describe the construction of an SNP array based linkage map. We then test the suitability of the map for life history and behavioural...

Data from: Payoff-based learning explains the decline in cooperation in public goods games

Maxwell N. Burton-Chellew, Heinrich H. Nax & Stuart A. West
Economic games such as the public goods game are increasingly being used to measure social behaviours in humans and non-human primates. The results of such games have been used to argue that people are pro-social, and that humans are uniquely altruistic, willingly sacrificing their own welfare in order to benefit others. However, an alternative explanation for the empirical observations is that individuals are mistaken, but learn, during the game, how to improve their personal payoff....

Data from: Large-scale proteomics of the cassava storage root and identification of a target gene to reduce post-harvest deterioration

Hervé Vanderschuren, Evans Nyaboga, Jacquelyne S. Poon, Katja Baerenfaller, Jonas Grossmann, Matthias Hirsch-Hoffmann, Norbert Kirchgessner, Paolo Nanni & Wilhelm Gruissem
Cassava (Manihot esculenta) is the most important root crop in the tropics, but rapid postharvest physiological deterioration (PPD) of the root is a major constraint to commercial cassava production. We established a reliable method for image-based PPD symptom quantification and used label-free quantitative proteomics to generate an extensive cassava root and PPD proteome. Over 2600 unique proteins were identified in the cassava root, and nearly 300 proteins showed significant abundance regulation during PPD. We identified...

Data from: Isolation-by-distance in landscapes: considerations for landscape genetics

Maarten J. Van Strien, Rolf Holderegger & Henrikus J. Van Heck
In landscape genetics, isolation-by-distance (IBD) is regarded as a baseline pattern that is obtained without additional effects of landscape elements on gene flow. However, the configuration of suitable habitat patches determines deme topology, which in turn should affect rates of gene flow. IBD patterns can be characterized either by monotonically increasing pairwise genetic differentiation (for example, FST) with increasing interdeme geographic distance (case-I pattern) or by monotonically increasing pairwise genetic differentiation up to a certain...

Data from: Ranking quantitative resistance to Septoria tritici blotch in elite wheat cultivars using automated image analysis

Petteri Karisto, Andreas Hund, Kang Yu, Jonas Anderegg, Achim Walter, Fabio Mascher, Bruce A. McDonald & Alexey Mikaberidze
Quantitative resistance is likely to be more durable than major gene resistance for controlling Septoria tritici blotch (STB) on wheat. Earlier studies hypothesized that resistance affecting the degree of host damage, as measured by the percentage of leaf area covered by STB lesions, is distinct from resistance that affects pathogen reproduction, as measured by the density of pycnidia produced within lesions. We tested this hypothesis using a collection of 335 elite European winter wheat cultivars...

Data from: Estimating speciation and extinction rates for phylogenies of higher taxa

Tanja Stadler & Folmer Bokma
Speciation and extinction rates can be estimated from molecular phylogenies. Recently, a number of methods have been published showing that these rates can be estimated even if the phylogeny is incomplete, that is, if not all extant species are included. We show that the accuracy of such methods strongly depends on making the correct assumptions about how the sampling process was performed. We focus on phylogenies that are incomplete because some subclades (e.g., genera and...

Plasmid- and strain-specific factors drive variation in ESBL-plasmid spread in vitro and in vivo

Fabienne Benz
Horizontal gene transfer, mediated by conjugative plasmids, is a major driver of the global rise of antibiotic resistance. However, the relative contributions of factors that underlie the spread of plasmids and their roles in conjugation in vivo are unclear. To address this, we investigated the spread of clinical Extended Spectrum Beta-Lactamase (ESBL)-producing plasmids in the absence of antibiotics in vitro and in the mouse intestine. We hypothesised that plasmid properties would be the primary determinants...

Long term irrigation experiment

Arun Bose, Andreas Rigling, Arthur Gessler, Frank Hagedorn, Ivano Brunner, Linda Feichtinger, Christof Bigler, Simon Egli, Sophia Etzold, Martin Gossner, Claudia Guidi, Mathieu Lévesque, Katrin Meusburger, Martina Peter, Matthias Saurer, Daniel Scherrer, Patrick Schleppi, Leonie Schönbeck, Michael Vogel, Georg Von Arx, Beat Wermelinger, Thomas Wohlgemuth, Roman Zweifel & Marcus Schaub
Climate change exposes ecosystems to strong and rapid changes in their environmental boundary conditions mainly due to the altered temperature and precipitation patterns. It is still poorly understood how fast interlinked ecosystem processes respond to altered environmental conditions, if these responses occur gradually or suddenly when thresholds are exceeded, and if the patterns of the responses will reach a stable state. We conducted an irrigation experiment in the Pfynwald, Switzerland from 2003-2018. A naturally dry...

Species interactions drive the spread of ampicillin resistance in human-associated gut microbiota

Siobhan O'Brien, Michael Baumgartner & Alex Hall
Background and objectives Slowing the spread of antimicrobial resistance is urgent if we are to continue treating infectious diseases successfully. There is increasing evidence microbial interactions between and within species are significant drivers of resistance. On one hand, cross-protection by resistant genotypes can shelter susceptible microbes from the adverse effects of antibiotics, reducing the advantage of resistance. On the other hand, antibiotic-mediated killing of susceptible genotypes can alleviate competition and allow resistant strains to thrive...

Conservation of Birds in Fragmented Landscapes Requires Protected Areas

Robert Timmers, Marijke Van Kuijk, Pita Verweij, Jaboury Ghazoul, Yann Hautier, William Laurance, Stefan Arriaga-Weiss, Robert Askins, Corrado Battisti, Åke Berg, Gretchen Daily, Cristián Estades, Beatrice Frank, Reiko Kurosawa, Rosamund Pojar, John Woinarski & Merel Soons
For successful conservation of biodiversity, it is vital to know whether protected areas in increasingly fragmented landscapes effectively conserve species. However, how large habitat fragments must be and what level of protection is required to sustain species, remains poorly known. We compiled a global dataset on almost 2000 bird species in 741 forest fragments varying in size and protection status, and show that protection is associated with higher bird occurrence, especially for threatened species. Protection...

Quantitative trait locus analysis of parasitoid counteradaptation to symbiont-conferred resistance

Gabriel F. Ulrich, Niklaus Zemp, Christoph Vorburger & Hélène Boulain
Insect hosts and parasitoids are engaged in an intense struggle of antagonistic coevolution. Infection with heritable bacterial endosymbionts can substantially increase the resistance of aphids to parasitoid wasps, which exerts selection on parasitoids to overcome this symbiont-conferred protection (counteradaptation). Experimental evolution in the laboratory has produced counteradapted populations of the parasitoid wasp Lysiphlebus fabarum. These populations can parasitize black bean aphids (Aphis fabae) protected by the bacterial endosymbiont Hamiltonella defensa, which confers high resistance against...

Exploring the role of genetic diversity and relatedness in tree seedling growth and mortality: a multi‐species study in a Bornean rain forest

Chris Kettle, Claire Tito De Morais, C.D. Philipson, C.R. Maycock, D.F.R.P Burslem, E. Khoo & J. Ghazoul
Where conspecific seedlings occur at high densities, density dependent processes tend to depress their performance and survival relative to co‐occurring heterospecifics. We extend this observation to within‐species genetic diversity and relatedness. We posit that seedling growth and survival increase where there is higher genetic diversity, and lower relatedness, among seedling populations, under the expectation that increased genetic dissimilarity among conspecific seedlings affords greater resistance to pathogens. We used estimates of individual seedling genetic diversity (multilocus...

Grasslands of temperate Europe in a changing world – Editorial to the 16th EDGG Special Feature in Tuexenia

Steffen Boch, Thomas Becker, Balázs Deák, Jürgen Dengler & Valentin H. Klaus
Mitglieder der Eurasian Dry Grassland Group (EDGG) und deren Vorgängerorganisationen geben seit 16 Jahren Grasland-Sonderausgaben (Special Features) in Tuexenia heraus. Das diesjährige Special Feature mit dem Titel Grasländer des gemäßigten Europas in einer sich verändernden Welt umfasst sieben Artikel, die verschiedene Aspekte der Graslandforschung beleuchten und dabei unterschiedliche Organismengruppen einbeziehen: LLUMIQUINGA et al. untersuchten Langzeiteffekte von Einsaat, Mahd und Kohlenstoffzusatz (Reduktion der Nährstoffverfügbarkeit durch Verschiebung des C/N-Verhältnis) auf den Renaturierungserfolg von pannonischem Sandgrasland auf ehemaligen...

A major combustion aerosol event had a negligible impact on the atmospheric ice-nucleating particle population

Michael Adams, Mark Tarn, Alberto Sanchez-Marroquin, Grace Porter, Daniel O'Sullivan, Alexander Harrison, Zhiqiang Cui, Jesús Vergara Temprado, Federico Carotenuto, Mark Holden, Martin Daily, Thomas Whale, Sebastien Sikora, Ian Burke, Jung-uk Shim, Jim McQuaid & Benjamin Murray
Clouds containing supercooled water are important for both climate and weather, but our knowledge of which aerosol particle types nucleate ice in these clouds is far from complete. Combustion aerosols have strong anthropogenic sources and if these aerosol types were to nucleate ice in clouds they might exert a climate forcing. Here, we quantified the atmospheric ice-nucleating particle (INP) concentrations during the UK’s annual Bonfire Night celebrations, which are characterised by strong anthropogenic emissions of...

ISIMIP3a reservoirs & dams input data

María del Rocío Rivas López, Jida Wang & Fangfang Yao
The Inter-Sectoral Impact Model Intercomparison Project (ISIMIP) provides a framework for the collation of a consistent set of climate impact data across sectors and scales. It also provides a unique opportunity for considering interactions between climate change impacts across sectors through consistent scenarios.
The ISIMIP3a part of the third simulation round is dedicated to i) impact model evaluation and improvement and ii) detection and attribution of observed impacts according to the framework of IPCC AR5 Working...

FoRCy: Rocking Shallow Foundation Performance in Slow Cyclic and Monotonic Experiments

Manouchehr Hakhamaneshi, Bruce L. Kutter, Andreas Gerasimos Gavras, Sivapalan Gajan, Angelos Tsatsis, George Gazetas, Ioannis Anastasopoulos, Tetsuya Kohno, Giovanna Pianese, Keshab Sharma, Lijun Deng, Weian Liu, Roberto Paolucci & Jonathan Monical
Numerous centrifuge experiments (e.g., Rosebrook 2001; Ugalde et al. 2007; Gajan and Kutter 2008; Deng et al. 2012; Hakhamaneshi et al. 2012; Liu et al. 2013; Allmond and Kutter 2014; Loli et al. 2014) and 1g shake-table experiments (e.g., Shirato et al. 2008; Drosos et al. 2012; Antonellis et al. 2015; Tsatsis and Anastasopoulos 2015) have demonstrated that rocking shallow foundations can be designed to provide re-centering and energy dissipation with little damage to the...

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