25 Works

Data from: Decrease in diversity and changes in community composition of arbuscular mycorrhizal fungi in roots of apple trees with increasing orchard management intensity across a regional scale

Maarten Van Geel, Bart Lievens & Olivier Honnay
Understanding which factors drive the diversity and community composition of arbuscular mycorrhizal fungi (AMF) is important due to the role of these soil microorganisms in ecosystem functioning and current environmental threats to AMF biodiversity. Additionally, in agro-ecosystems, this knowledge may help to evaluate their use in making agriculture more sustainable. Here, we used 454-pyrosequencing of small subunit rRNA gene amplicons to quantify AMF diversity and community composition in the roots of cultivated apple trees across...

Data from: Signatures of selection in the three-spined stickleback along a small scale brackish water - freshwater transition zone

Nellie Konijnendijk, Takahito Shikano, Dorien Daneels, Filip A. M. Volckaert, Joost A. M. Raeymaekers & Filip A.M. Volckaert
Local adaptation is often obvious when gene flow is impeded, such as observed at large spatial scales and across strong ecological contrasts. However, it becomes less certain at small scales such as between adjacent populations or across weak ecological contrasts, when gene flow is strong. While studies on genomic adaptation tend to focus on the former, less is known about the genomic targets of natural selection in the latter situation. In this study, we investigate...

Data from: Taxonomic challenges in freshwater fishes: a mismatch between morphology and DNA barcoding in fish of the north-eastern part of the Congo basin

Eva Decru, Tuur Moelants, Koen De Gelas, Emmanuel Vreven, Erik Verheyen & Jos Snoeks
This study evaluates the utility of DNA barcoding to traditional morphology-based species identifications for the fish fauna of the north-eastern Congo basin. We compared DNA sequences (COI) of 821 samples from 206 morphologically identified species. Best match, best close match and all species barcoding analyses resulted in a rather low identification success of 87.5%, 84.5% and 64.1%, respectively. The ratio ‘nearest-neighbour distance/maximum intraspecific divergence’ was lower than 1 for 26.1% of the samples, indicating possible...

Data from: Soil microbiome responses to the short-term effects of Amazonian deforestation

Acácio A. Navarrete, Siu M. Tsai, Lucas W. Mendes, Karoline Faust, Mattias De Hollander, Noriko A. Cassman, Johannes A. Van Veen, Eiko E. Kuramae & Jeroen Raes
Slash-and-burn clearing of forest typically results in increase in soil nutrient availability. However, the impact of these nutrients on the soil microbiome is not known. Using next generation sequencing of 16S rRNA gene and shotgun metagenomic DNA, we compared the structure and the potential functions of bacterial community in forest soils to deforested soils in the Amazon region and related the differences to soil chemical factors. Deforestation decreased soil organic matter content and factors linked...

Data from: Larval UV exposure impairs adult immune function through a trade-off with larval investment in cuticular melanin

Sara Debecker, Ruben Sommaruga, Tim Maes & Robby Stoks
Despite the strong impact of ultraviolet (UV) radiation on invertebrates, it is unknown whether it affects immune function across metamorphosis. More generally, the mechanisms on how larval stressors bridge metamorphosis and shape adult fitness in animals with a complex life cycle remain poorly understood. We studied whether cuticular melanin content is upregulated under UV exposure in the larval stage of the damselfly Coenagrion puella and whether this is traded off across metamorphosis against a key...

Data from: Discrete choice modelling of natal dispersal: \"choosing\" where to breed from a finite set of available areas

Michalis Vardakis, Peter Goos, Frank Adriaensen & Erik Matthysen
1. Classic natal dispersal studies focus mainly on distance travelled. Although distances capture some of the main selective pressures related to dispersal, this approach cannot easily incorporate the properties of the actual destination vs. the available alternatives. Recently, movement ecology studies have addressed questions on movement decisions in relation to availability of resources and/or availability of suitable habitats through the use of discrete choice models (DCMs), a widely used type of models within econometrics, which...

Data from: The impact of conservation management on the community composition of multiple organism groups in eutrophic interconnected man-made ponds

Pieter Lemmens, Joachim Mergeay, Jeroen Van Wichelen, Luc De Meester & Steven A. J. Declerck
Ponds throughout the world are subjected to a variety of management measures for purposes of biodiversity conservation. Current conservation efforts typically comprise a combination of multiple measures that directly and indirectly impact a wide range of organism groups. Knowledge of the relative impact of individual measures on different taxonomic groups is important for the development of effective conservation programs. We conducted a field study of 28 man-made ponds, representing four management types differing in the...

Data from: Effects of microstimulation in the anterior intraparietal area during three-dimensional shape categorization

Bram-Ernst Verhoef, Rufin Vogels & Peter Janssen
The anterior intraparietal area (AIP) of rhesus monkeys is part of the dorsal visual stream and contains neurons whose visual response properties are commensurate with a role in three-dimensional (3D) shape perception. Neuronal responses in AIP signal the depth structure of disparity-defined 3D shapes, reflect the choices of monkeys while they categorize 3D shapes, and mirror the behavioral variability across different stimulus conditions during 3D-shape categorization. However, direct evidence for a role of AIP in...

Data from: The population genomic signature of environmental selection in the widespread insect-pollinated tree species Frangula alnus at different geographical scales

Hanne De Kort, Katrien Vandepitte, Joachim Mergeay, Kristine Vander Mijnsbrugge & Olivier Honnay
The evaluation of the molecular signatures of selection in species lacking an available closely related reference genome remains challenging, yet it may provide valuable fundamental insights into the capacity of populations to respond to environmental cues. We screened 25 native populations of the tree species Frangula alnus subsp. alnus (Rhamnaceae), covering three different geographical scales, for 183 annotated single-nucleotide polymorphisms (SNPs). Standard population genomic outlier screens were combined with individual-based and multivariate landscape genomic approaches...

Data from: Functional role of phenylacetic acid from metapleural gland secretions in controlling fungal pathogens in evolutionarily derived leafcutter ants

Hermógenes Fernández-Marín, David R. Nash, Sara Higginbotham, Catalina Estrada, Jelle S. Van Zweden, Patrizia D'Ettorre, William T. Wcislo, Jacobus J. Boomsma & H. Fernandez-Marin
Fungus-farming ant colonies vary four to five orders of magnitude in size. They employ compounds from actinomycete bacteria and exocrine glands as antimicrobial agents. Atta colonies have millions of ants and are particularly relevant for understanding hygienic strategies as they have abandoned their ancestors' prime dependence on antibiotic-based biological control in favour of using metapleural gland (MG) chemical secretions. Atta MGs are unique in synthesizing large quantities of phenylacetic acid (PAA), a known but little...

Data from: Population genetic dynamics of an invasion reconstructed from the sediment egg bank

Markus Möst, Sarah Oexle, Silvia Markova, Dalia Aidukaite, Livia Baumgartner, Hans-Bernd Stich, Martin Wessels, Dominik Martin-Creuzburg & Piet Spaak
Biological invasions are a global issue with far-reaching consequences for single species, communities and whole ecosystems. Our understanding of modes and mechanisms of biological invasions requires knowledge of the genetic processes associated with successful invasions. In many instances, this information is particularly difficult to obtain as the initial phases of the invasion process often pass unnoticed and we rely on inferences from contemporary population genetic data. Here, we combined historic information with the genetic analysis...

Data from: Trophic interactions in an ant nest microcosm: a combined experimental and stable isotope (δ13C/δ15N) approach

Thomas Parmentier, Steven Bouillon, Wouter Dekoninck & Tom Wenseleers
Living in close association with other organisms has proven to be a widespread and successful strategy in nature. Some communities are completely driven by symbiotic associations and therefore, intimate relationships among the partners can be expected. Here, we analyzed in-depth the food web of a particularly rich community of arthropods found in strict association with European red wood ants (Formica rufa group). We studied the trophic links between different ant-associated myrmecophiles and food sources associated...

Data from: Experimental evolution reveals high insecticide tolerance in Daphnia inhabiting farmland ponds

Mieke Jansen, Anja Coors, Joost Vanoverbeke, Melissa Schepens, Pim De Voogt, Karel A. C. De Schamphelaere & Luc De Meester
Exposure of non-target populations to agricultural chemicals is an important aspect of global change. We quantified the capacity of natural Daphnia magna populations to locally adapt to insecticide exposure through a selection experiment involving carbaryl exposure and a control. Carbaryl tolerance after selection under carbaryl exposure did not increase significantly compared to the tolerance of the original field populations. However, there was evolution of a decreased tolerance in the control experimental populations compared to the...

Data from: Mycorrhizal diversity, seed germination and long-term changes in population size across nine populations of the terrestrial orchid Neottia ovata

Hans Jacquemyn, Michael Waud, Vincent S. F. T. Merckx, Bart Lievens & Rein Brys
In plant species that rely on mycorrhizal symbioses for germination and seedling establishment, seedling recruitment and temporal changes in abundance can be expected to depend on fungal community composition and local environmental conditions. However, disentangling the precise factors that determine recruitment success in species that critically rely on mycorrhizal fungi represents a major challenge. In this study, we used seed germination experiments, 454 amplicon pyrosequencing and assessment of soil conditions to investigate the factors driving...

Data from: Global circulation patterns of seasonal influenza viruses vary with antigenic drift

Trevor Bedford, Steven Riley, Ian G. Barr, Shobha Broor, Mandeep Chadha, Nancy J. Cox, Rodney S. Daniels, C. Palani Gunasekaran, Aeron C. Hurt, Anne Kelso, Alexander Klimov, Nicola S. Lewis, Xiyan Li, John W. McCauley, Takato Odagiri, Varsha Potdar, Andrew Rambaut, Yuelong Shu, Eugene Skepner, Derek J. Smith, Marc A. Suchard, Masato Tashiro, Dayan Wang, Xiyan Xu, Philippe Lemey … & Colin A. Russell
Understanding the spatiotemporal patterns of emergence and circulation of new human seasonal influenza virus variants is a key scientific and public health challenge. The global circulation patterns of influenza A/H3N2 viruses are well characterized1, 2, 3, 4, 5, 6, 7, but the patterns of A/H1N1 and B viruses have remained largely unexplored. Here we show that the global circulation patterns of A/H1N1 (up to 2009), B/Victoria, and B/Yamagata viruses differ substantially from those of A/H3N2...

Data from: Effective connectivity of depth-structure-selective patches in the lateral bank of the macaque intraparietal sulcus

Elsie Premereur, Ilse C. Van Dromme, Maria C. Romero, Wim Vanduffel & Peter Janssen
Extrastriate cortical areas are frequently composed of subpopulations of neurons encoding specific features or stimuli, such as color, disparity, or faces, and patches of neurons encoding similar stimulus properties are typically embedded in interconnected networks, such as the attention or face-processing network. The goal of the current study was to examine the effective connectivity of subsectors of neurons in the same cortical area with highly similar neuronal response properties. We first recorded single- and multi-unit...

Data from: Low genetic diversity despite multiple introductions of the invasive plant species Impatiens glandulifera in Europe

Jenny Hagenblad, Jennifer Hülskötter, Kamal Prasad Acharya, Jörg Brunet, Olivier Chabrerie, Sara A. O. Cousins, Pervaiz A. Dar, Martin Diekmann, Pieter De Frenne, Martin Hermy, Aurélien Jamoneau, Annette Kolb, Isgard Lemke, Jan Plue, Zafar A. Reshi & Bente Jessen Graae
Background: Invasive species can be a major threat to native biodiversity and the number of invasive plant species is increasing across the globe. Population genetic studies of invasive species can provide key insights into their invasion history and ensuing evolution, but also for their control. Here we genetically characterise populations of Impatiens glandulifera, an invasive plant in Europe that can have a major impact on native plant communities. We compared populations from the species’ native...

Data from: Genetic diversity and spatial genetic structure of the grassland perennial Saxifraga granulata along two river systems

Sascha Van Der Meer & Hans Jacquemyn
Due to changes in land use, the natural habitats of an increasing number of plant species have become more and more fragmented. In landscapes that consist of patches of suitable habitat, the frequency and extent of long-distance seed dispersal can be expected to be an important factor determining local genetic diversity and regional population structure of the remaining populations. In plant species that are restricted to riparian habitats, rivers can be expected to have a...

Data from: Dispersal constraints for the conservation of the grassland herb Thymus pulegioides L. in a highly fragmented agricultural landscape

An Vanden Broeck, Tobias Ceulemans, Gunter Kathagen, Maurice Hoffmann, Olivier Honnay & Joachim Mergeay
Species-rich grassland communities are one of the most important habitats for biodiversity and of high conservation priority in Europe. Restoration actions are mainly focused on the improvement of abiotic conditions, such as nutrient depletion techniques, and are generally based on the assumption that the target community will re-establish at the restored site when the target species exist in the neighborhood. Information on the contemporary seed-dispersal range is therefore crucial to develop effective conservation measures. Here,...

Data from: Genotypic diversity and differentiation among populations of two benthic freshwater diatoms as revealed by microsatellites

Pieter Vanormelingen, Katharine M. Evans, David G. Mann, Stacey Lance, Ann-Eline Debeer, Sofie D'Hondt, Tine Verstraete, Luc De Meester & Wim Vyverman
Given their large population sizes and presumed high dispersal capacity, protists are expected to exhibit homogeneous population structure over large spatial scales. On the other hand, the fragmented and short-lived nature of the lentic freshwater habitats that many protists inhabit promotes strong population differentiation. We used microsatellites in two benthic freshwater diatoms, Eunotia bilunaris ‘robust’ and Sellaphora capitata, sampled from within a pond and connected ponds, through isolated ponds from the same region to western...

Data from: Neutral and adaptive genomic signatures of rapid poleward range expansion

Janne Swaegers, Joachim Mergeay, Anneleen Van Geystelen, Lieven Therry, Maarten H.D. Larmuseau, Robby Stoks & M. H. D. Larmuseau
Many species are expanding their range polewards and this has been associated with rapid phenotypic change. Yet, it is unclear to what extent this reflects rapid genetic adaptation or neutral processes associated with range expansion, or selection linked to the new thermal conditions encountered. To disentangle these alternatives, we studied the genomic signature of range expansion in the damselfly Coenagrion scitulum using 4950 newly developed genomic SNPs and linked this to the rapidly evolved phenotypic...

Data from: Rapid evolution of increased vulnerability to an insecticide at the expansion front in a poleward moving damselfly

Khuong Van Dinh, Lizanne Janssens, Lieven Therry, Hajnalka Anna Gyulavári, Lieven Bervoets & Robby Stoks
Many species are too slow to track their poleward moving climate niche under global warming. Pesticide exposure may contribute to this by reducing population growth and impairing flight ability. Moreover, edge populations at the moving range front may be more vulnerable to pesticides because of the rapid evolution of traits to enhance their rate of spread that shunt energy away from detoxification and repair. We exposed replicated edge and core populations of the poleward moving...

Data from: Range-wide population structure of European sea bass Dicentrarchus labrax

Erika L. Souche, Bart Hellemans, Massimiliano Babbucci, Eoin MacAoidh, Bruno Guinand, Luca Bargelloni, Dimitry Alexandrovich Chistiakov, Tomaso Patarnello, François Bonhomme, Jann T. Martinsohn & Filip A. M. Volckaert
The euryhaline European sea bass Dicentrarchus labrax L., inhabiting the coasts of the eastern Atlantic Ocean and Mediterranean Sea, has had many opportunities for differentiation throughout its large natural range. However, evidence for this has been incompletely documented geographically and with an insufficient number of markers. Therefore, its full range was sampled at 22 sites and individuals were genotyped with a suite of mapped markers, including 14 microsatellite loci (N = 536) and 46 neutral...

Data from: Hidden founder effects: small-scale spatial genetic structure in recently established populations of the grassland specialist plant Anthyllis vulneraria

Kenny Helsen, Hans Jacquemyn & Olivier Honnay
The long-term establishment success of founder plant populations has been commonly assessed based on the measures of population genetic diversity and among population genetic differentiation, with founder populations expected to carry sufficient genetic diversity when population establishment is the result of many colonists from multiple source populations (the ‘migrant pool’ colonization model). Theory, however, predicts that, after initial colonization, rapid population expansion may result in a fast increase in the extent of spatial genetic structure...

Data from: Fitness trade-offs explain low levels of persister cells in the opportunistic pathogen Pseudomonas aeruginosa

Kristine Stepanyan, Tom Wenseleers, Edgar A. Duéñez-Guzmán, Frédéric Muratori, Bram Van Den Bergh, Natalie Verstraeten, Luc De Meester, Kevin J. Verstrepen, Maarten Fauvart & Jan Michiels
Microbial populations often contain a fraction of slow-growing persister cells that withstand antibiotics and other stress factors. Current theoretical models predict that persistence levels should reflect a stable state in which the survival advantage of persisters under adverse conditions is balanced with the direct growth cost impaired under favourable growth conditions, caused by the nonreplication of persister cells. Based on this direct growth cost alone, however, it remains challenging to explain the observed low levels...

Registration Year

  • 2015
    25

Resource Types

  • Dataset
    25

Affiliations

  • KU Leuven
    25
  • Ghent University
    5
  • University of Antwerp
    3
  • Research Institute for Nature and Forest
    3
  • French National Centre for Scientific Research
    3
  • University of Cambridge
    2
  • Nederlands Instituut voor Ecologie
    2
  • Leiden University
    2
  • Royal Museum for Central Africa
    1
  • National Institute of Infectious Diseases
    1