16 Works

Political Agreements in Internal Conflicts (PAIC) Dataset and Codebook

Giuditta Fontana, Argyro Kartsonaki, Natascha Neudorfer, Dawn Walsh, Stefan Wolff & Crystalla Yakinthou

High diversity of mites (Acari: Oribatida, Mesostig-mata) supports the high conservation value of a broadleaf forest in Eastern Norway

Anna Seniczak, Stanisław Seniczak, Josef Starý, Sławomir Kaczmarek, Bjarte Jordal, Jarosław Kowalski, Steffen Roth, Per Djursvoll & Thomas Bolger
Broadleaf forests are critical habitats for biodiversity and this biodiversity is in turn essential for their proper functioning. Mites (Acari) are a numerous and functionally essential component of these forests. We report the diversity of two important groups, Oribatida and Mesostigmata, in a broadleaf forest in Eastern Norway which is considered to be a biodiversity hotspot. Eighteen samples, each 500 cm3, were collected from diverse microhabitats (moss on ground, lichens on tree twigs lying on...

Identification and evaluation of serum protein biomarkers which differentiate psoriatic from rheumatoid arthritis

Angela Mc Ardle
Objectives To identify serum protein biomarkers which might separate early inflammatory arthritis (EIA) patients with psoriatic arthritis (PsA) from those with rheumatoid arthritis (RA) and may be used to support appropriate early intervention. Methods The serum proteome of patients with PsA and RA was interrogated using liquid chromatography mass spectrometry (LC-MS/MS) (n=64 patients), a multiplexed antibody assay (Luminex) for 48 proteins (n=64 patients) and an aptamer-based assay (SOMAscan) targeting 1,129 proteins (n=36 patients). Multiple reaction...

Data from: The transcriptomics of crushing jaw convergence in cichlid fishes: comparative gene expression in recent sympatric versus older allopatric trophic adaptations

Nidal Karagic, Sarah Weis, Paolo Franchini, Axel Meyer & C. Darrin Hulsey
How gene expression diverges during adaptation might be strongly influenced by the geographic setting and timeframe over which species evolve. To contrast transcriptomic patterns of replicate trophic adaptations that evolved convergently during both allopatric and sympatric contexts, we conducted RNA-seq on the trophically important lower pharyngeal jaws of two sympatrically and four allopatrically diverged species pairs of cichlid fishes. We first show that all of these species pairs have convergently diverged along a crushing trophic...

Microplastics in Eurasian otter (Lutra lutra) spraints and their potential as a biomonitoring tool in freshwater systems

James D. O'Connor, Heather T. Lally, Anne-Marie Mahon, Ian O'Connor, Róisín Nash, John J. O'Sullivan, Michael Bruen, Linda Heerey, Albert A. Koelmans, Ferdia Marnell & Sinéad Murphy
The ubiquitous nature of microplastics in aquatic ecosystems may have serious implications for aquatic biota. While microplastic research in freshwater ecosystems is increasing, very few studies have assessed the physical presence of microplastics among top predators. The Eurasian otter (Lutra lutra), a top predator of aquatic ecosystems, is one of the most widely distributed otter species and has a broad habitat niche. The opportunistic collection of otter spraints (i.e. feces) presents a valuable opportunity to...

Appendices interview formats

Una Cunningham, Aoife De Brún, Willgerodt Mayumi, Erin Blakeney & Eilish McAuliffe
Background: Literature on multi-disciplinary healthcare team interventions to improve quality and safety of care in acute hospital contexts tends to focus on evaluating the success of the intervention by assessing patient outcomes. In contrast, there is little focus on the team who delivered the intervention, how the team worked to deliver the intervention or the context in which it was delivered. In practice, there is a poor understanding of why some interventions work and are...

Integrative genomics of the mammalian alveolar macrophage response to intracellular mycobacteria: RNA-seq statistics and results

David MacHugh, Thomas Hall, Michael Mullen, Gillian McHugo, Kate Killick, Donagh Berry, Siobhán Ring, Carolina Correia, John Browne & Stephen Gordon
Background: Bovine TB (bTB), caused by infection with Mycobacterium bovis, is a major endemic disease affecting global cattle production. The key innate immune cell that first encounters the pathogen is the alveolar macrophage, previously shown to be substantially reprogrammed during intracellular infection by the pathogen. Here we use differential expression, and correlation- and interaction-based network approaches to analyse the host response to infection with M. bovis at the transcriptome level to identify core infection response...

Data from: Machine learning identifies ecological selectivity patterns across the end-Permian mass extinction

William Foster, Georgy Ayzel, Jannes Münchmeyer, Tabea Rettelbach, Niklas Kitzmann, Terry Isson, Maria Mutti & Martin Aberhan
The end-Permian mass extinction occurred alongside a large swathe of environmental changes that are often invoked as extinction mechanisms, even when a direct link is lacking. One way to elucidate the cause(s) of a mass extinction is to investigate extinction selectivity as it can reveal critical information on organismic traits as key determinants of extinction and survival. Here we show that machine learning algorithms, specifically gradient boosted decision trees, can be used to identify determinants...

U-Pb isotope ratios and trace element concentrations of carbonate-fluorapatite from phosphate nodules in Carboniferous sedimentary rocks in northern Co. Clare, Ireland

Gary J O'Sullivan, J Stephen Daly, John Murray, Aodhán Ó'Gogáin, David M Chew, Foteini Drakou, Paul C Guyett & Eszter Badenszki
These data are trace element concentrations and U-Pb isotope ratios from phosphate nodules in Carboniferous-age carbonates, shales and phosphorites in Co. Clare, western Ireland. Sampling locations (both in degrees and as UTM coordinates) are also included. Mineralogically, the analysed material is apatite (species: carbonate-fluorapatite). These data are being used to support a paper which is currently under review. Data were collected by LA-Q-ICPMS in the National Centre for Isotope Geochemistry in University College Dublin, and...

RNA-sequencing of endometrial explants

Sandra Recuero, José María Sánchez, Sandra Bagés-Arnal, Michael McDonald, Susanta K. Behura, Thomas E. Spencer, Marc Yeste, Pat Lonergan & Beatriz Fernandez-Fuertes
Seminal plasma (SP) has been shown to modulate the female reproductive environment in mammalian species in which the ejaculate comes into direct contact with the endometrium, such as mice, pigs and horses. In contrast, cattle ejaculate in the vagina, and it is questionable whether the fluid portion reaches the uterus. A recent study from our group reported that mating to intact, but not vasectomised, bulls modifies the endometrium transcriptome. However, it is not clear whether...

Scavenging beetles control the temporal response of soil communities to carrion decomposition

Tancredi Caruso, Marco Ilardi, Sheena Cotter, Edith Hammer & Gillian Riddell
1. Carrion is a frequent but overlooked source of nutrients to the soil. The decomposition of carrion is accelerated by invertebrate scavengers but the impact of the scavengers on below-ground biota and its functions is scarcely known. 2. We conducted a laboratory experiment to investigate the effects of the burying beetle Nicrophorus vespilloides on the soil community of a temperate broadleaved forest. We assembled microcosms from soil collected from an oak woodland and treated them...

Large‐scale genome sampling reveals unique immunity and metabolic adaptations in bats

Diana Daniela Moreno Santillan, Tanya Lama, Yocelyn T Gutierrez Guerrero, Zixia Huang, Graham Hughes, Alexis Brown, Paul Donat, Huabin Zhao, Stephen Rossiter, Laurel Yohe, Joshua Potter, Emma Teeling, Sonja Vernes, Kalina Davies, Eugene Myers, Federico Hoffmann, Angelique Corthals, David Ray & Liliana Davalos
Comprising more than 1,400 species, bats possess adaptations unique among mammals including powered flight, unexpected longevity given small body size, and extraordinary immunity. Some of the molecular mechanisms underlying these unique adaptations includes DNA repair, metabolism and immunity. However, analyses have been limited to a few divergent lineages, reducing the scope of inferences on gene family evolution across the Order Chiroptera. We conducted an exhaustive comparative genomic study of 37 bat species encompassing a large...

Football is becoming more predictable: Network analysis of 88 thousand matches in 11 major leagues

Taha Yasseri
In recent years excessive monetization of football and professionalism among the players has been argued to have affected the quality of the match in different ways. On the one hand, playing football has become a high-income profession and the players are highly motivated; on the other hand, stronger teams have higher incomes and therefore afford better players leading to an even stronger appearance in tournaments that can make the game more imbalanced and hence predictable....

In utero accumulated steroids predict neonate anti-predator response in a wild mammal

Bawan Amin, Dómhnall Jennings, Adam Smith, Matthew Quinn, Srivats Chari, Amy Haigh, Devorah Matas, Lee Koren & Simone Ciuti
This file contains the raw data and R-scripts used for the analysis published in the research article: "In utero accumulated steroids predict neonate anti‐predator response in a wild mammal" (https://doi.org/10.1111/1365-2435.13790). A full and detailed description of the methods can be found in the manuscript, or at request from the author (BA). The R-scripts can be used to follow all the steps taken in the analysis and fully reproduce the effects reported. The file contains data...

Use of Deep Learning for structural analysis of CT-images of soil samples

Ralf Wieland, Chinatsu Ukawa, Monika Joschko, Adrian Krolczyk, Guido Fritsch, Thomas Hildebrandt, Juliane Filser, Olaf Schmidt & Juan J. Jimenez
Soil samples from several European countries were scanned using medical computer tomography (CT) device and are now available as CT images. The analysis of these samples was carried out using deep learning methods. For this purpose, a VGG16 network was trained with the CT-images (X). For the annotation (y) a new method for automated annotation, "surrogate'' learning, was introduced. The generated neural networks (NN) were subjected to a detailed analysis. Among other things, transfer learning...

A forest pool as a habitat island for mites in a limestone forest in Southern Norway

Anna Seniczak, Stanislaw Seniczak, Radomir Graczyk, Sławomir Kaczmarek, Bjarte H. Jordal, Jarosław Kowalski, Per Djursvoll, Steffen Roth & Thomas Bolger
Forest water bodies, e.g., pools, constitute ‘environmental islands’ within forests, with specific flora and fauna thus contributing considerably to the landscape biodiversity. The mite communities of Oribatida and Mesostigmata in two distinctive microhabitats, water-soaked Sphagnum mosses at the edge of a pool and other mosses growing on the medium-wet forest floor nearby, were compared in a limestone forest in Southern Norway. In total, 16,189 specimens of Oribatida representing 98 species, and 499 specimens of Mesostigmata,...

Registration Year

  • 2021
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Resource Types

  • Dataset
    16

Affiliations

  • University College Dublin
    15
  • Queen's University Belfast
    2
  • University of Bergen
    2
  • Max Planck Institute for Psycholinguistics
    1
  • University of Washington
    1
  • Tokyo University of Agriculture and Technology
    1
  • Centre for Ecology and Conservation Sciences
    1
  • Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria
    1
  • Lund University
    1
  • University of Waikato
    1