167 Works

Data from: Evolutionary–phylogenetic pathway of the Cretaceous ammonite genus Aegocrioceras and its relationship to Juddiceras spp. and Crioceratites spp.

Manuel F. G. Weinkauf, René Hoffmann & Kurt Wiedenroth
The systematics of ammonoids are complicated by their large degree of intra-specific variation, which complicates a stable validation of species. Aegocrioceras is a heteromorph ammonite from the Lower Saxony Basin in the Hauterivian Boreal, and a prime example of a genus with an unstable internal systematic and external relationship to other ammonoids. Here, we use quantitative morphometrics on Aegocrioceras species from an assemblage collected in the clay pit Resse (north-west Germany) to evaluate the systematics...

Data from: Spectroscopic approach to correction and visualisation of bright-field light transmission microscopy biological data

Ganna Platonova, Dalibor Štys, Pavel Souček, Kirill Lonhus, Jan Valenta & Renata Rychtáriková
The most realistic information about the transparent sample such as a live cell can be obtained only using bright-field light microscopy. At high-intensity pulsing LED illumination, we captured a primary 12-bit-per-channel (bpc) response from an observed sample using a bright-field wide-field microscope equipped with a high-resolution (4872x3248) image sensor. In order to suppress data distortions originating from the light interactions with undesirable elements in the optical path, poor sensor reproduction (geometrical defects of the camera...

Genomics of new ciliate lineages provides insight into the evolution of obligate anaerobiosis - single gene datasets for phylogenomic analysis of anaerobic ciliates (SAL, Ciliophora), protein datasets for mitochondrial pathways prediction, and mitochondrial genomes

Johana Rotterova, Eric Salomaki, Tomas Panek, William Bourland, David Zihala, Petr Taborsky, Virginia Edgcomb, Roxanne Beinart, Martin Kolisko & Ivan Cepicka
Oxygen plays a crucial role in energetic metabolism of most eukaryotes. Yet, adaptations to low oxygen concentrations leading to anaerobiosis have independently arisen in many eukaryotic lineages, resulting in a broad spectrum of reduced and modified mitochondrial organelles (MROs). In this study, we present the discovery of two new class-level lineages of free-living marine anaerobic ciliates, Muranotrichea, cl. nov. and Parablepharismea, cl. nov., that, together with the class Armophorea, form a major clade of obligate...

Data from: The influence of climate variability on demographic rates of avian Afro-palearctic migrants

Jiri Reif, Tomáš Telenský, Petr Klvaňa, Miroslav Jelínek & Jaroslav Cepák
Climate is an important driver of changes in animal population size, but its effect on the underlying demographic rates remains insufficiently understood. This is particularly true for avian long-distance migrants which are exposed to different climatic factors at different phases of their annual cycle. To fill this knowledge gap, we used data collected by a national-wide bird ringing scheme for eight migratory species wintering in sub-Saharan Africa and investigated the impact of climate variability on...

Moose occurrence data in Bohemian Forest Ecosystem

Tomáš Janík, Marco Heurich, Wibke Peters, Martin Šálek, Dušan Romportl, Miloslav Jirků, Thomas Engleder, Martin Ernst & Jiří Neudert
This dataset contains all gathered spatial data for moose occurrence in our study area (see manuscript). In the table you can find these attributes: country of the occurrence, data quality according to SCALP classification, details about occurrence, coordinates for used S-JTSK (5514) reference system, locality and year of the record.

Data from: Re-examination of species limits in Aspergillus section Flavipedes using advanced species delimitation methods and description of four new species

František Sklenář, Željko Jurjević, Jos Houbraken, Miroslav Kolařík, Maiken Cavling Arendrup, Karin Meinike Jørgensen, Joao Paulo Zen Siqueira, Josepa Gené, Takashi Yaguchi, Chibundu Ngozi Ezekiel, Cristina Silva Pereira & Vít Hubka
Since the last revision in 2015, the taxonomy of section Flavipedes evolved rapidly along with the availability of new species delimitation techniques. This study aims to re-evaluate the species boundaries of section Flavipedes members using modern delimitation methods applied to an extended set of strains (n=90) collected from various environments. The analysis used DNA sequences of three house-keeping genes (benA, CaM, RPB2) and consisted of two steps: application of several single-locus (GMYC, bGMYC, PTP, bPTP)...

Data from: Functional traits determine why species belong to the dark diversity in a dry grassland fragmented landscape

Rocío Belinchón, Lucie Hemrová & Zuzana Münzbergová
A challenge for nature conservation is to know why many species are absent from suitable habitats and whether they might be able to disperse and to establish. Here, we used 272 dry grassland patches within a fragmented landscape to investigate the role of local abiotic conditions and dispersal filtering in determining the likelihood of vascular plants to belong to the dark diversity (i.e. absent portion of the species pool). First, we quantified the species (SD),...

Termite dispersal is influenced by their diet

Simon Hellemans, Jan Šobotník, Gilles Lepoint, Martin Mihaljevič, Yves Roisin & Thomas Bourguignon
Termites feed on vegetal matter at various stages of decomposition. Lineages of wood- and soil-feeding termites are distributed across terrestrial ecosystems located between 45°N and 45°S of latitude, a distribution they acquired through many transoceanic dispersal events. While wood-feeding termites often live in the wood on which they feed and are efficient at dispersing across oceans by rafting, soil-feeders are believed to be poor dispersers. Therefore, their distribution across multiple continents requires an explanation. Here,...

Data from: Introduction bias affects relationships between the characteristics of ornamental alien plants and their naturalization success

Noëlie Maurel, Jan Hanspach, Ingolf Kühn, Petr Pyšek & Mark Van Kleunen
Aim: Alien plants with certain characteristics may have been introduced earlier and more frequently than others. Such introduction bias may cause spurious associations between plant characteristics and naturalization (the establishment of self-sustaining populations in the wild). We aimed to disentangle direct and indirect (i.e. mediated by introduction history) effects of species characteristics on the naturalization success of alien plants introduced for horticulture. Location: Germany (non-native range); rest of the world (native range). Methods: We compiled...

Data from: Determination of factors associated with natural soil suppressivity to potato common scab

Marketa Sagova-Mareckova, Ondrej Daniel, Marek Omelka, Vaclav Kristufek, Jiri Divis & Jan Kopecky
Common scab of potatoes is a disease, which is difficult to manage due to complex interactions of the pathogenic bacteria (Streptomyces spp.) with soil, microbial community and potato plants. In Bohemian-Moravian Highlands in the Czech Republic two sites (Vyklantice and Zdirec) were selected for a study of common scab disease suppressivity. At both sites, a field with low disease severity occurs next to one with high severity and the situation was regularly observed over four...

Data from: Wolves at the crossroad: fission-fusion range biogeography in the Western Carpathians and Central Europe

Pavel Hulva, Barbora Černá Bolfíková, Vendula Woznicová, Milena Jindřichová, Markéta Benešová, Robert W. Myslajek, Sabina Nowak, Maciej Szewczyk, Natalia Niedzwiecka, Michał Figura, Andrea Hájková, Atilla D. Sándor, Vladimír Zyka, Dušan Romportl, Miroslav Kutal, Slavomír Finďo & Vladimír Antal
Aim: Population fragmentation represents a leitmotif of conservation biology, but the impact of population reconnection is less well studied. The recent recolonization of large carnivores in Europe is a good model for studying this phenomenon. We aim to show novel data regarding distribution and population genetic structure of the grey wolf in Central Europe, a region considered a frequent crossroad and contact zone of different phylogeographic lineages, in a biogeographic context. Location: Western Carpathians, Central...

Data from: Automated taxonomic identification of insects with expert-level accuracy using effective feature transfer from convolutional networks

Miroslav Valan, Karoly Makonyi, Atsuto Maki, Dominik Vondracek & Fredrik Ronquist
Rapid and reliable identification of insects is important in many contexts, from the detection of disease vectors and invasive species to the sorting of material from biodiversity inventories. Because of the shortage of adequate expertise, there has long been an interest in developing automated systems for this task. Previous attempts have been based on laborious and complex handcrafted extraction of image features, but in recent years it has been shown that sophisticated convolutional neural networks...

Data from: Repertoire-based individual acoustic monitoring of a migratory passerine bird with complex song as an efficient tool for tracking territorial dynamics and annual return rates

Tereza Petrusková, Iveta Pišvejcová, Anna Kinštová, Tomáš Brinke & Adam Petrusek
In field ecological and behavioural studies, it is often necessary to identify specific individuals. In birds, colour rings are frequently used to mark individuals; however, rings are often difficult to observe, especially in small species and dense habitats. Acoustic-based monitoring detecting individuals by their characteristic vocalization is a potentially suitable alternative, but this approach is challenging in species with complex songs. On the example of the Tree Pipit (Anthus trivialis), a small migratory passerine often...

Data from: European ornamental garden flora as an invasion debt under climate change

Emily Haeuser, Wayne Dawson, Wilfried Thuiller, Stefan Dullinger, Svenja Block, Oliver Bossdorf, Marta Carboni, Luisa Conti, Iwona Dullinger, Franz Essl, Günther Klonner, Dietmar Moser, Tamara Muenkemueller, Madalin Parepa, Matthew V. Talluto, Holger Kreft, Jan Pergl, Petr Pyšek, Patrick Weigelt, Marten Winter, Martin Hermy, Sebastiaan Van Der Veken, Cristina Roquet & Mark Van Kleunen
1.Most naturalized and invasive alien plant species were originally introduced to regions for horticultural purposes. However, many regions now face an invasion debt from ornamental alien species, which have not yet naturalized. In this regard, climate change represents a threat as it may lower the barriers to naturalization for some ornamental alien species. Identifying those species is extremely important for anticipating impending invasions. 2.To identify predictors of naturalization, we modelled the effects of climate, nursery...

Data from: How a haemosporidian parasite of bats gets around: the genetic structure of a parasite, vector and host compared

Fardo Witsenburg, Laura Clément, Ludovic Dutoit, Adrià López-Baucells, Jorge Palmeirim, Dino Scaravelli, Martin Ševčík, Nicolas Salamin, Jérôme Goudet, Philippe Christe & Igor Pavlinić
Parasite population structure is often thought to be largely shaped by that of its host. In the case of a parasite with a complex life cycle, two host species, each with their own patterns of demography and migration, spread the parasite. However, the population structure of the parasite is predicted to resemble only that of the most vagile host species. In this study we tested this prediction in the context of a vector-transmitted parasite. We...

Data from: Scrimer: designing primers from transcriptome data

Libor Mořkovský, Jan Pačes, Jakub Rídl & Radka Reifová
With the rise of next-generation sequencing methods, it has become increasingly possible to obtain genomewide sequence data even for nonmodel species. Such data are often used for the development of single nucleotide polymorphism (SNP) markers, which can subsequently be screened in a larger population sample using a variety of genotyping techniques. Many of these techniques require appropriate locus-specific PCR and genotyping primers. Currently, there is no publicly available software for the automated design of suitable...

Data from: Static allometry of unicellular green algae: scaling of cellular surface area and volume in the genus Micrasterias (Desmidiales)

Jiri Neustupa
The surface area-to-volume ratio of cells is one of the key factors affecting fundamental biological processes and, thus, fitness of unicellular organisms. One of the general models for allometric increase in surface-to-volume scaling involves fractal-like elaboration of cellular surfaces. However, specific data illustrating this pattern in natural populations of the unicellular organisms have not previously been available. This study shows that unicellular green algae of the genus Micrasterias (Desmidiales) have positive allometric surface-to-volume scaling caused...

Data from: Unravelling species boundaries in the Aspergillus viridinutans complex (section Fumigati): opportunistic human and animal pathogens capable of interspecific hybridization

Vit Hubka, Vanessa Barrs, Zuzana Dudová, František Sklenář, Alena Kubátová, Tetsuhiro Matsuzawa, Takashi Yaguchi, Yoshikazu Horie, Alena Nováková, Jens C. Frisvad, Jessica Talbot & Miroslav Kolařík
Although Aspergillus fumigatus is the major agent of invasive aspergillosis, an increasing number of infections are caused by its cryptic species, especially A. lentulus and the A. viridinutans species complex (AVSC). Their identification is clinically relevant because of antifungal drug resistance and refractory infections. Species boundaries in the AVSC are unresolved since most species have uniform morphology and produce interspecific hybrids in vitro. Clinical and environmental strains from six continents (n = 110) were characterized...

Data from: Phylogeny of xerophilic aspergilli (subgenus Aspergillus) and taxonomic revision of section Restricti

František Sklenář, Željko Jurjević, Polona Zalar, J. C. Frisvad, Cobus M. Visagie, Miroslav Kolařík, Jos Houbraken, Amanda J. Chen, Neriman Yilmaz, Keith A. Seifert, Monica Coton, Franck Déniel, Nina Gunde-Cimerman, Robert A. Samson, Stephen W. Peterson & Vít Hubka
Aspergillus section Restricti together with sister sect. Aspergillus (formerly Eurotium) comprises osmophilic species, that are able to grow on substrates with low water activity and in extreme environments. We adressed the monophyly of both sections within subgenus Aspergillus and applied a multidisciplinary approach for definition of species boundaries in sect. Restricti. The monophyly of sections Aspergillus and Restricti was tested on a set of 102 taxa comprising all currently accepted species and was strongly supported...

Data from: Wild boar (Sus scrofa) increases species diversity of semi-dry grassland: field experiment with simulated soil disturbances

Eva Horčičková, Josef Brůna & Jaroslav Vojta
Background Foraging activities of wild boar (Sus scrofa) create small-scale soil disturbances in many different vegetation types. Rooting alters species composition by opening niches for less-competitive plants and as a recurrent factor becomes a part of the community disturbance regime. Vegetation responses to wild boar disturbance have mostly been studied in the boar’s non-native range or in native forest, rather than in open habitats in the native range. We investigate the response of open European...

Data from: Availability of food resources and habitat structure shape the individual‐resource network of a neotropical marsupial

Nicholas F. De Camargo, Hernani F.M. De Oliveira, Juliana F. Ribeiro, Amabilio J.A. De Camargo & Emerson M. Vieira
1. Spatial and temporal variation in networks has been reported in different studies. However, the many effects of habitat structure and food-resource availability variation on network structures have remained poorly investigated, especially in individual-based networks. This approach can shed light on individual specialization of resource use and how habitat variations shape trophic interactions. 2. To test hypotheses related to habitat variability on trophic interactions, we investigated seasonal and spatial variation in network structure of four...

Data from: Reconstructing the invasion history of Heracleum persicum (Apiaceae) into Europe

Dilli P. Rijal, Torbjørn Alm, Šárka Jahodova, Hans K. Stenøein & Inger G. Alsos
Sparse, incomplete and inappropriate historical records of invasive species often hamper invasive species management interventions. Population genetic analyses of invaders might provide a suitable context for the identification of their source populations and possible introduction routes. Here, we describe the population genetics of Heracleum persicum Desf. ex Fisch and trace its route of introduction into Europe. Microsatellite markers revealed a significantly higher genetic diversity of H. persicum in its native range, and the loss of...

Data from: Cross-fostering eggs reveals that female collared flycatchers adjust clutch sex ratios according to parental ability to invest in offspring

E. Keith Bowers, Pavel Munclinger, Stanislav Bureš, Petr Nádvorník, Lenka Kučerová & Miloš Krist
Across animal taxa, reproductive success is generally more variable and more strongly dependent upon body condition for males than for females; in such cases, parents able to produce offspring in above-average condition are predicted to produce sons, whereas parents unable to produce offspring in good condition should produce daughters. We tested this hypothesis in the collared flycatcher (Ficedula albicollis) by cross-fostering eggs among nests and using the condition of foster young that parents raised to...

Data from: Ecological differentiation, lack of hybrids involving diploids, and asymmetric gene flow between polyploids in narrow contact zones of Senecio carniolicus (syn. Jacobaea carniolica, Asteraceae)

Karl Hülber, Michaela Sonnleitner, Jan Suda, Jana Krejčíková, Peter Schönswetter, Gerald M. Schneeweiss & Manuela Winkler
Areas of immediate contact of different cytotypes offer a unique opportunity to study evolutionary dynamics within heteroploid species and to assess isolation mechanisms governing coexistence of cytotypes of different ploidy. The degree of reproductive isolation of cytotypes, i.e., the frequency of heteroploid crosses and subsequent formation of viable and (partly) fertile hybrids, plays a crucial role for the long-term integrity of lineages in contact zones. Here, we assessed fine-scale distribution, spatial clustering and ecological niches...

Data from: Local and regional founder effects in lake zooplankton persist after thousands of years despite high dispersal potential

Marc Ventura, Adam Petrusek, Alexandre Miró, Eva Hamrová, Danilo Buñay, Luc De Meester & Joachim Mergeay
We reconstructed the genetic structure of a planktonic crustacean Daphnia longispina living in high mountain lakes and ponds in the Pyrenees to investigate whether it was shaped by persistent founder effects originating shortly after the last glacial maximum or by ongoing dispersal and effective migration (gene flow). We found that the genetic structure can largely be explained by a single colonization event following gradual deglaciation of the Pyrenees c. 10-15 000 years ago. Nuclear genetic...

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