49 Works

International stroke genetics consortium - intracranial aneurysm groups - cohorts and phenotypic descriptors

Sandrine Morel
Approximately 3% of the population harbor an unruptured intracranial aneurysm (IA) and the overall risk of an aneurysmal rupture is about 1% per year. Rupture of IA causes aneurysmal subarachnoid hemorrhage (aSAH) and despite recent improvements in risk stratification, imaging, surgical and intensive care treatment, the functional outcome after aSAH remains poor. The goal of the present study was to investigate patient and IA characteristics associated with IA rupture using a large multicenter collection of...

High resolution ancient sedimentary DNA shows that alpine plant diversity is associated with human land use and climate change

Sandra Garcés-Pastor, Eric Coissac, Sébastien Lavergne, Christoph Schwörer, Jean-Paul Theurillat, Peter D. Heintzman, Owen Wangensteen, Willy Tinner, Fabian Rey, Martina Lia Heer, Astrid Rutzer, Kevin Walsh, Youri Lammers, Antony G. Brown, Tomasz Goslar, Dilli P. Rijal, Dirk N. Karger, Loïc Pellissier, Group PhyloAlps Consortium, Oliver Heiri & Inger Greve Alsos
The European Alps are highly rich in species, but their future may be threatened by ongoing changes in human land use and climate. Here, we reconstructed vegetation, temperature, human impact and livestock over the past ~12,000 years from Lake Sulsseewli, based on sedimentary ancient plant and mammal DNA, pollen, spores, chironomids, and microcharcoal. We assembled a highly-complete local DNA reference library (PhyloAlps, 3,923 plant taxa), and used this to obtain an exceptionally rich sedaDNA record...

Additional file 2 of Alzheimer’s disease-related transcriptional sex differences in myeloid cells

Isabelle Coales, Stergios Tsartsalis, Nurun Fancy, Maria Weinert, Daniel Clode, David Owen & Paul M. Matthews
Additional file 2: Table S1. Sexually differentially expressed genes in the microglial nuclei. Table S2. Genes comprising each of the IR-AD gene sets. Table S3. Sexually differentially expressed genes between the F- and M-MCs. Table S4. GSVA of IR-AD gene sets between Flo- and Fhi-MDMs results. Table S5. Sexually differentially expressed genes between the Flo- and M-MDMs. Table S6. Sexually differentially expressed reactome pathways between the Flo- and M-MDMs. Table S7. Differentially expressed reactome pathways...

Additional file 4 of Strengthening vaccination delivery system resilience in the context of protracted humanitarian crisis: a realist-informed systematic review

Sharif A. Ismail, Sze Tung Lam, Sadie Bell, Fouad M. Fouad, Karl Blanchet & Josephine Borghi
Additional file 4: Appendix 4. Summary table of included studies.

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: 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: 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: 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...

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...

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.

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,...

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.

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: 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...

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...

Additional file 2 of Alzheimer’s disease-related transcriptional sex differences in myeloid cells

Isabelle Coales, Stergios Tsartsalis, Nurun Fancy, Maria Weinert, Daniel Clode, David Owen & Paul M. Matthews
Additional file 2: Table S1. Sexually differentially expressed genes in the microglial nuclei. Table S2. Genes comprising each of the IR-AD gene sets. Table S3. Sexually differentially expressed genes between the F- and M-MCs. Table S4. GSVA of IR-AD gene sets between Flo- and Fhi-MDMs results. Table S5. Sexually differentially expressed genes between the Flo- and M-MDMs. Table S6. Sexually differentially expressed reactome pathways between the Flo- and M-MDMs. Table S7. Differentially expressed reactome pathways...

Additional file 4 of Strengthening vaccination delivery system resilience in the context of protracted humanitarian crisis: a realist-informed systematic review

Sharif A. Ismail, Sze Tung Lam, Sadie Bell, Fouad M. Fouad, Karl Blanchet & Josephine Borghi
Additional file 4: Appendix 4. Summary table of included studies.

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...

Social-ecological cascade effects of land-use on vertebrate pest dynamics in arid agricultural communities

Amir Lewin, Joseph Erinjery, Doron Nissim & Takuya Iwamura
Extensive land conversion to agriculture in drylands and associated resource use have wide-ranging impacts on desert ecosystems globally. Incorporating the impacts of human-social aspects is thus imperative in examining ecological interactions. The provision of agricultural inputs in these resource-scarce regions supports invasive and pest species, negatively impacting both agricultural productivity and native desert ecosystems. Understanding the spatial dynamics of invasive and pest species requires analyzing both bottom-up resource availability factors underlying animal distributions and top-down...

Supporting data for: Limited genetic differentiation of Mycetomoellerius mikromelanos in Parc National Soberanía, Panama: Implications for queen dispersal

Cody Raul Cardenas, Andrew Mularo, Andreas Chavez & Rachelle Adams
The coevolutionary relationship between fungus-growing ants (Formicidae: Attini: Attina) and their symbionts has been well-studied in the Panamanian rainforests. To further understand the ecological context of these evolutionary relationships, we have examined the population genetic structure of the fungus-growing ant species Mycetomoellerius mikromelanos Cardenas, Schultz, & Adams 2021, in the Panama Canal Zone. We specifically investigated the presence of population structure, the significance of geographic features (i.e., creeks) limiting gene flow, and relatedness between ant...

Registration Year

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Resource Types

  • Dataset
    49

Affiliations

  • University of Geneva
    49
  • University of Bern
    6
  • Swiss Federal Institute of Technology in Zurich
    4
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    3
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