44 Works

Data from: Hippocampus is place of interaction between unconscious and conscious memories

Marc Alain Züst, Patrizio Colella, Thomas Peter Reber, Patrik Vuilleumier, Martinus Hauf, Simon Ruch & Katharina Henke
Recent evidence suggests that humans can form and later retrieve new semantic relations unconsciously by way of hippocampus—the key structure also recruited for conscious relational (episodic) memory. If the hippocampus subserves both conscious and unconscious relational encoding/retrieval, one would expect the hippocampus to be place of unconscious-conscious interactions during memory retrieval. We tested this hypothesis in an fMRI experiment probing the interaction between the unconscious and conscious retrieval of face-associated information. For the establishment of...

Data from: Evolution of sexual traits influencing vectorial capacity in anopheline mosquitoes

Sara N. Mitchell, Evdoxia G. Kakani, Adam South, Paul I. Howell, Robert M. Waterhouse & Flaminia Catteruccia
The availability of genome sequences from 16 anopheline species provides unprecedented opportunities to study the evolution of reproductive traits relevant for malaria transmission. In Anopheles gambiae, a likely candidate for sexual selection is male 20-hydroxyecdysone (20E). Sexual transfer of this steroid hormone as part of a mating plug dramatically changes female physiological processes intimately tied to vectorial capacity. By combining phenotypic studies with ancestral state reconstructions and phylogenetic analyses, we show that mating plug transfer...

Data from: Methane emission offsets carbon dioxide uptake in a small productive lake

Dominic Vachon, Timon Langenegger, Daphne Donis, Stan E. Beaubien & Daniel McGinnis
Here we investigate the importance of net CH4 production and emissions in the carbon (C) budget of a small eutrophic lake by monitoring CH4, CO2 and O2 during two consecutive years. During the study period, the lake was mostly a net emitter of both CH4 and CO2, while having a net autotrophic metabolism. The analyses suggest that during the whole study period 29 ± 23 % of C produced by net ecosystem production was ultimately...

Loricarioid catfish evolved skin denticles that recapitulate teeth at the structural, developmental, and genetic levels (raw RNAseq reads)

Carlos Javier Rivera-Rivera, Nadezhda I. Guevara-Delgadillo, Ilham A. Bahechar, Claire A. Shea & Juan Ignacio Montoya-Burgos
The first vertebrate mineralized skeleton was an external bony armor coated with dental structures. The subsequent emergence of a mineralized endoskeleton and of teeth are considered key innovations in the diversification of vertebrates. Although time clouds our understanding of the initial evolution of these mineralized structures, recent re-emergences may shed light on the underlying processes. Loricarioid catfishes are a lineage that, much like the ancestral vertebrates, bear denticle-clad bony armor from head to tail. Loricarioid...

Air temperature influences early Covid-19 outbreak as indicated by worldwide mortality

Claudio Quilodrán, Mathias Currat & Juan Montoya-Burgos
The Covid-19 outbreak has triggered a global crisis that is challenging governments, health systems and the scientific community worldwide. A central question in the Covid-19 pandemic is whether climatic factors have influenced its progression. To address this question, we used mortality rates during the first three weeks of recorded mortality in 144 countries, during the first wave of the pandemic. We examined the effect of climatic variables, along with the proportion of the population older...

Data from: Functional dissimilarity, not phylogenetic relatedness, determines interspecific interactions among plants in the Tibetan alpine meadows

Shengman Lyu, Xiang Liu, Patrick Venail & Shurong Zhou
The hypotheses suggesting that the nature and strength of species interactions should be determined by phylogenetic relatedness have important implications for the understanding of community structure. However, to date, there is limited empirical evidence to support them. At least two basic conditions need to be met in order to expect species interactions to be determined by evolutionary relatedness: a phylogenetic signal in the traits involved in the interactions and changes in the interactions as species...

Data from: Testing the applicability of a benthic foraminiferal-based transfer function for the reconstruction of paleowater depth changes in Rhodes (Greece) during the early Pleistocene

Yvonne Milker, Manuel F.G. Weinkauf, Jürgen Titschack, Andre Freiwald, Stefan Krüger, Frans J. Jorissen, Gerhard Schmiedl & Manuel F. G. Weinkauf
We present paleo-water depth reconstructions for the Pefka E section deposited on the island of Rhodes (Greece) during the early Pleistocene. For these reconstructions, a transfer function (TF) using modern benthic foraminifera surface samples from the Adriatic and Western Mediterranean Seas has been developed. The TF model gives an overall predictive accuracy of ~50 m over a water depth range of ~1200 m. Two separate TF models for shallower and deeper water depth ranges indicate...

Compiled call report data for: Financial intermediation, capital accumulation and crisis recovery

Martin Scheffel, Hans Gersbach & Jean-Charles Rochet
We integrate bank and bond financing into a two-sector neoclassical growth model and identify an automatic stabilization effect due to endogenous bank leverage adjustment. We show that although bank leverage amplifies shocks, the increase of leverage due to a decline in bank equity partially offsets the post-crisis decline of bank lending and accelerates economic recovery by reducing the persistence of the bank lending channel. In this case, endogenous leverage adjustment is an automatic stabilizer. Regulatory...

Europarl-direct

Bruno Cartoni, Thomas Meyer & Philipp Koehn
These files provide statement pair extractions from the Europarl corpus of the same known source language directly translated to the target langages.

Disco-Annotation

Andrei Popescu-Belis, Thomas Meyer, Jeevanthi Liyanapathirana, Bruno Cartoni, Sandrine Zufferey & Najeh Hajlaoui
Disco-Annotation is a collection of training and test sets with manually annoted discourse relations for 8 discourse connectives in europarl texts.

Data from: Phylogeography and support vector machine classification of colour variation in panther chameleons

Djordje Grbic, Suzanne V. Saenko, Toky M. Randriamoria, Adrien Debry, Achille P. Raselimanana & Michel C. Milinkovitch
Lizards and snakes exhibit colour variation of adaptive value for thermoregulation, camouflage, predator avoidance, sexual selection and speciation. Furcifer pardalis, the panther chameleon, is one of the most spectacular reptilian endemic species in Madagascar, with pronounced sexual dimorphism and exceptionally large intraspecific variation in male coloration. We perform here an integrative analysis of molecular phylogeography and colour variation after collecting high-resolution colour photographs and blood samples from 324 F. pardalis individuals in locations spanning the...

Data from: The population genomics of archaeological transition in west Iberia: investigation of ancient substructure using imputation and haplotype-based methods

Rui Martiniano, Lara M. Cassidy, Ros Ó'Maoldúin, Russell McLaughlin, Nuno M. Silva, Licinio Manco, Daniel Fidalgo, Tania Pereira, Maria J. Coelho, Miguel Serra, Joachim Burger, Rui Parreira, Elena Moran, Antonio C. Valera, Eduardo Porfirio, Rui Boaventura, Ana M. Silva & Daniel G. Bradley
We analyse new genomic data (0.05–2.95x) from 14 ancient individuals from Portugal distributed from the Middle Neolithic (4200–3500 BC) to the Middle Bronze Age (1740–1430 BC) and impute genomewide diploid genotypes in these together with published ancient Eurasians. While discontinuity is evident in the transition to agriculture across the region, sensitive haplotype-based analyses suggest a significant degree of local hunter-gatherer contribution to later Iberian Neolithic populations. A more subtle genetic influx is also apparent in...

Data from: Transcriptomic resources for an endemic Neotropical plant lineage (Gesneriaceae)

Martha Liliana Serrano-Serrano, Anna Marcionetti, Mathieu Perret & Nicolas Salamin
Premise of the study: Despite the extensive phenotypic variation that characterizes the Gesneriaceae family, there is a lack of genomic resources to investigate the molecular basis of their diversity. We developed and compared the transcriptomes for two species of the Neotropical lineage of the Gesneriaceae. Methods and Results: Illumina sequencing and de novo assembly of floral and leaf samples were used to generate multigene sequence data for Sinningia eumorpha and S. magnifica, two species endemic...

Data from: Hummingbird pollination and the diversification of angiosperms: an old and successful association in Gesneriaceae

Martha Liliana Serrano-Serrano, Jonathan Rolland, John Clark, Nicolas Salamin & Mathieu Perret
The effects of specific functional groups of pollinators in the diversification of angiosperms are still to be elucidated. We investigated whether the pollination shifts or the specific association with hummingbirds affected the diversification of a highly diverse angiosperm lineage in the Neotropics. We reconstructed a phylogeny of 583 species from the Gesneriaceae family and detected diversification shifts through time, inferred the timing and amount of transitions among pollinator functional groups, and tested the association between...

Supplementary information for: From scales to armour: scale losses and trunk bony plate gains in ray-finned fishes

Alexandre Lemopoulos & Juan Ignacio Montoya-Burgos
Actinopterygians (ray-finned fishes) are the most diversified group of vertebrates and are characterized by a variety of protective structures covering their integument, the evolution of which has intrigued biologists for decades. Paleontological records showed that the first mineralized vertebrate skeleton was composed of dermal bony plates covering the body, including odontogenic and skeletogenic components. Later in evolution, the exoskeleton of actinopterygian's trunk was composed of scale structures. Although scales are nowadays a widespread integument cover,...

Data from: A test of community assembly rules using foliar endophytes from a tropical forest canopy

Julian Donald, Mélanie Roy, Uxue Suescun, Amaia Iribar, Sophie Manzi, Léonie Péllissier, Philippe Gaucher & Jérôme Chave
Community assembly theory assumes that ecological communities are spatially delimited into patches. Within these patches, coexistence results from environmental filtering, competition, and immigration. Truly delineated communities exist in laboratory studies of microbial cultures in Petri dishes, yet empirical tests conducted in continuous environments often use patches defined by convention as opposed to realised boundaries. Here we perform a test of ecological community assembly rules using foliar endophyte communities from a tropical rainforest, where leaves are...

Data from: Computer assisted detection of axonal bouton structural plasticity in in vivo time-lapse images

Rohan Gala, Daniel Lebrecht, Daniela A. Sahlender, Anne Jorstad, Graham Knott, Anthony Holtmaat & Armen Stepanyants
The ability to measure minute structural changes in neural circuits is essential for long-term in vivo imaging studies. Here, we propose a methodology for detection and measurement of structural changes in axonal boutons imaged with time-lapse two-photon laser scanning microscopy (2PLSM). Correlative 2PLSM and 3D electron microscopy (EM) analysis, performed in mouse barrel cortex, showed that the proposed method has low fractions of false positive/negative bouton detections (2/0 out of 18), and that 2PLSM-based bouton...

Data from: Screening primary-care patients forgoing health care for economic reasons

Patrick Bodenmann, Bernard Favrat, Hans Wolff, Idris Guessous, Francesco Panese, Lilli Herzig, Thomas Bischoff, Alejandra Casillas, Thomas Golano & Paul Vaucher
Background: Growing social inequities have made it important for general practitioners to verify if patients can afford treatment and procedures. Incorporating social conditions into clinical decision-making allows general practitioners to address mismatches between patients’ health-care needs and financial resources. Objectives: Identify a screening question to, indirectly, rule out patients’ social risk of forgoing health care for economic reasons, and estimate prevalence of forgoing health care and the influence of physicians’ attitudes toward deprivation. Design: Multicenter...

Data from: The effect of bioturbation by polychaetes (Opheliidae) on benthic foraminiferal assemblages and test preservation

José N. Pérez-Asensio, Julio Aguirre & Francisco J. Rodríguez-Tovar
Biological activity such as burrowing can alter benthic foraminiferal shell preservation and may also modify benthic foraminiferal assemblages by vertical mixing, inducing sediment homogenization. Here, we analyse benthic foraminiferal assemblages and taphonomy of upper Miocene marine deposits from Conil de la Frontera (Cádiz, south-western Spain). The deposits consist of marls displaying a pervasive alternation of intensively bioturbated beds dominated by Macaronichnus segregatis traces (ichnofabric index 4–5) and non-bioturbated beds. Benthic foraminiferal assemblages are dominated by...

Data from: Increase in CO2 concentration could alter the response of Hedera helix to climate change

Ruben D. Manzanedo, Juan Ballesteros-Cánovas, Floris Schenk, Markus Stoffel, Markus Fischer & Eric Allan
• Increasing CO2 concentrations ([CO2]) is likely to affect future species distributions, in interaction with other climate change drivers. However, current modelling approaches still seldom consider interactions between climatic factors and the importance of these interactions therefore remains mostly unexplored. • Here, we combined dendrochronological and modelling approaches to study the interactive effects of increasing [CO2] and temperature on the distribution of one of the main European liana species, Hedera helix. We combined a classical...

Data from: Trunk dental tissue evolved independently from underlying dermal bony plates but is associated to surface bones in living odontode-bearing catfish

Carlos J. Rivera-Rivera & Juan I. Montoya-Burgos
Although oral dental tissue is a vertebrate attribute, trunk dental tissue evolved in several extinct vertebrate lineages but is rare among living species. The question of which processes trigger dental-tissue formation in the trunk remains open, and would shed light on odontogenesis evolution. Extra-oral dental structures (odontodes) in the trunk are associated with underlying dermal bony plates, leading us to ask whether the formation of trunk bony plates is necessary for trunk odontodes to emerge....

Data from: Taxonomy-free molecular diatom index for high-throughput eDNA biomonitoring

Laure Apothéloz-Perret-Gentil, Arielle Cordonier, François Straub, Jennifer Iseli, Philippe Esling & Jan Pawlowski
Current biodiversity assessment and biomonitoring are largely based on the morphological identification of selected bioindicator taxa. Recently, several attempts have been made to use eDNA metabarcoding as an alternative tool. However, until now, most applied metabarcoding studies have been based on the taxonomic assignment of sequences that provides reference to morphospecies ecology. Usually, only a small portion of metabarcoding data can be used due to a limited reference database and a lack of phylogenetic resolution....

Data from: Long-distance dispersal suppresses introgression of local alleles during range expansions

C. E. G. Amorim, T Hofer, N Ray, M Foll, A Ruiz-Linares & L Excoffier
During range expansions, even low levels of interbreeding can lead to massive introgression of local alleles into an invader's genome. Nonetheless, this pattern is not always observed in human populations. For instance, European Americans in North America are barely introgressed by Amerindian genes in spite of known contact and admixture. With coalescent spatially explicit simulations, we examined the impact of long-distance dispersal (LDD) events on introgression of local alleles into the invading population using a...

Data from: Positive selection on sperm ion channels in a brooding brittle star: consequence of life-history traits evolution

Alexandra A. T. Weber, Laurent Abi-Rached, Nicolas Galtier, Aurélien Bernard, Juan I. Montoya-Burgos, Anne Chenuil & A. A.-T. Weber
Closely related species are key models to investigate mechanisms leading to reproductive isolation and early stages of diversification, also at the genomic level. The brittle star cryptic species complex Ophioderma longicauda encompasses the sympatric broadcast spawning species C3 and the internal brooding species C5. Here we used de novo transcriptome sequencing and assembly in two closely related species displaying contrasting reproductive modes to compare their genetic diversity and to investigate the role of natural selection...

Data from: Mixing of porpoise ecotypes in southwestern UK waters revealed by genetic profiling

Michael C. Fontaine, Oliver Thatcher, Nicolas Ray, Sylvain Piry, Andrew Brownlow, Nicholas J. Davison, Paul Jepson, Rob Deaville & Simon J. Goodman
Contact zones between ecotypes are windows for understanding how species may react to climate changes. Here, we analysed the fine-scale genetic and morphological variation in harbour porpoises (Phocoena phocoena) around the UK by genotyping 591 stranded animals at nine microsatellite loci. The data were integrated with a prior study to map at high resolution the contact zone between two previously identified ecotypes meeting in the northern Bay of Biscay. Clustering and spatial analyses revealed that...

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