68 Works

Supporting data for ‘DFENS: Diffusion chronometry using Finite Elements and Nested Sampling’

Euan Mutch, John Maclennan, Oliver Shorttle, John Rudge & David Neave
This is supporting data for the manuscript entitled 'DFENS: Diffusion chronometry using Finite Elements and Nested Sampling' by E. J. F. Mutch, J. Maclennan, O. Shorttle, J. F. Rudge and D. Neave. Preprint here: https://doi.org/10.1002/essoar.10503709.1 Data Set S1. ds01.csv Electron probe microanalysis (EPMA) profile data of olivine crystals used in this study. Standard deviations are averaged values of standard deviations from counting statistics and repeat measurements of secondary standards. Data Set S2. ds02.csv Plagioclase compositional...

Solutions to BAS-PRO model runs for Modelling 1-10MeV Proton Phase Space Density

Alexander Lozinski, Richard Horne, Sarah Glauert, Giulio Del Zanna & Seth Claudepierre
This dataset contains solution data produced by the BAS-PRO proton radiation belt model for the study "Modelling Inner Proton Belt Variability at Energies 1 to 10MeV using BAS-PRO". The solution data is in the form of 3D grids describing phase space density computed during dynamic simulations of Earth's proton belt over the modelling period 2014 to 2018. Three model runs are included: SA19, J81 and S16. Files were produced in May 2021. This work was...

Changes in gene expression and encapsulation in Drosophila melanogaster caused by exposure to parasitoid wasps

A.B. Leitão, A. Ramesh, J.P. Day, N. Hanna, A. Devi, M.P. Hayes & F.M. Jiggins
Data consists of gene expression estimates and encapsulation rates in wild caught Drosophila melanogaster larvae following exposure to different treatments. Treatments include injection with wasp homogenate, injection with oil and no injection. Also provided are functional enrichment categories for differentially expressed genes and library generation and read mapping metrics. The data were produced under the grant: NE/P00184X/1

HadCM3 and HadGEM3 LIG model outputs: A sea ice-free Arctic

Maria Vittoria Guarino & Louise Sime
The HadGEM3 (HadGEM3-GC3.1 or HadGEM3-GC3.1-N96ORCA1) PI simulation was initialized using the standard CMIP6 protocol using constant 1850 GHGs, ozone, solar, tropospheric aerosol, stratospheric volcanic aerosol and land-use forcing. The PI spin-up was 700 model-years, which allowed the land and oceanic masses to attain approximate steady state. The HadGEM3 LIG (Last Interglacial) simulation was initialized from the end of the spin-up phase of the equivalent pre-industrial (PI) simulation. After initialization, the LIG was run for 350...

Phenotypic plasticity in chemical defence allows butterflies to diversify host use strategies

Erika De Castro, Jamie Musgrove, Søren Bak, Owen McMillan & Chris Jiggins
Hostplant specialization is a major force driving ecological niche partitioning and diversification in insect herbivores. The cyanogenic defences of Passiflora plants keeps most herbivores at bay, but not larvae of Heliconius butterflies, which can both sequester and biosynthesize cyanogenic compounds. Here, we demonstrate that both Heliconius cydno chioneus, a host plant generalist, and H. melpomene rosina, a specialist, have remarkable plasticity in their chemical defence. When feeding on Passiflora species with cyanogenic compounds they can...

Identification of a novel sex determining chromosome in cichlid fishes that acts as XY or ZW in different lineages

Anna Fiona Feller, Vera Ogi, Ole Seehausen & Joana Isabel Meier
Sex determination systems are highly conserved among most vertebrates with genetic sex determination, but can be variable and evolve rapidly in some. Here, we study sex determination in a clade with exceptionally high sex chromosome turnover rates. We identify the sex determining chromosomes in three interspecific crosses of haplochromine cichlid fishes from Lakes Victoria and Malawi. We find evidence for different sex determiners in each cross. In the Malawi cross and one Victoria cross the...

Data from: Improving the resolution of canine genome-wide association studies using genotype imputation: a study of two breeds

Christopher Jenkins, Sally Ricketts, Cathryn Mellersh, Ellen Schofield & Luisa De Risio
Genotype imputation using a reference panel that combines high-density array data and publicly available whole genome sequence consortium variant data is potentially a cost-effective method to increase the density of extant lower-density array datasets. In this study three datasets (two Border Collie; one Italian Spinone) generated using a legacy array (Illumina CanineHD, 173,662 SNPs) were utilised to assess the feasibility and accuracy of this approach and to gather additional evidence for the efficacy of canine...

Data from: Abundance data applied to a novel model invertebrate host sheds new light on parasite community assembly in nature

Joshua Brian & David Aldridge
Understanding how environmental drivers influence the assembly of parasite communities, in addition to how parasites may interact at an infracommunity level, are fundamental requirements for the study of parasite ecology. Knowledge of how parasite communities are assembled will help to predict the risk of parasitism for hosts, and model how parasite communities may change under variable conditions. However, studies frequently rely on presence-absence data and examine multiple host species or sites, metrics which may be...

Contributions of genetic and non-genetic sources to variation in cooperative behaviour in a cooperative mammal

Thomas Houslay, Johanna Nielsen & Tim Clutton-Brock
The evolution of cooperative behaviour is a major area of research among evolutionary biologists and behavioural ecologists, yet there are few estimates of its heritability or of its evolutionary potential and long-term studies of identifiable individuals are required to disentangle genetic and non-genetic components of cooperative behaviour. Here we use long-term data on over 1800 individually recognisable wild meerkats (Suricata suricatta) collected over 30 years and a multi-generational genetic pedigree to partition phenotypic variation in...

COMSOL models of fluid flow in the sarcomere

Sage Malingen, Kaitlyn Hood, Eric Lauga, Anette Hosoi & Thomas Daniel
A highly organized and densely packed lattice of molecular machinery within the sarcomeres of muscle cells powers contraction. Although many of the proteins that drive contraction have been studied extensively, the mechanical impact of fluid shearing within the lattice of molecular machinery has received minimal attention. It was recently proposed that fluid flow augments substrate transport in the sarcomere, however, this analysis used analytical models of fluid flow in the molecular machinery that could not...

Progression of clinical features in Lewy body dementia can be detected over six months

Elie Matar, Elie Matar, Simon R. White, John-Paul Taylor, Alan Thomas, Ian G. McKeith, Joseph P. M. Kane, Ajenthan Surendranathan, Glenda M. Halliday, Simon J. G. Lewis & John T. O'Brien
Objective: This study aimed to quantify the trajectory and magnitude of change of the key clinical features and corresponding symptom domains of Dementia with Lewy bodies (DLB) and Parkinson’s disease dementia (PDD) including global cognition, parkinsonism, recurrent visual hallucinations, cognitive fluctuations and sleep disturbance. Methods: 116 patients with Lewy body dementia (DLB=72, PDD=44) underwent assessment at baseline, 3 and 6 months as part of a prospective multi-centre randomized control trial. Linear mixed models were constructed...

Genotype data not consistent with clonal transmission of sea turtle fibropapillomatosis or goldfish schwannoma

Máire Ní Leathlobhair, Kelsey Yetsko, Jessica A. Farrell, Carmelo Iaria, Gabriele Marino, David J. Duffy & Elizabeth P. Murchison
Recent discoveries of transmissible cancers in multiple bivalve species suggest that direct transmission of cancer cells within species may be more common than previously thought, particularly in aquatic environments. Fibropapillomatosis occurs with high prevalence in green sea turtles (Chelonia mydas) and the geographic range of disease has increased since fibropapillomatosis was first reported in this species. Widespread incidence of schwannomas, benign tumours of Schwann cell origin, reported in aquarium-bred goldfish (Carassius auratus), suggest an infectious...

Behavioural change during dispersal and its relationship to survival and reproduction in a cooperative breeder

Natasha Harrison, Nino Maag, Paul Haverkamp, André Ganswindt, Marta Manser, Tim Clutton-Brock, Arpat Ozgul & Gabriele Cozzi
(1) The ability of dispersing individuals to adjust their behaviour to changing conditions is instrumental in overcoming challenges and reducing dispersal costs, consequently increasing overall dispersal success. Understanding how dispersers’ behaviour and physiology change during the dispersal process, and how they differ from resident individuals, can shed light on the mechanisms by which dispersers increase survival and maximise reproduction. (2) By analysing individual behaviour and concentrations of faecal glucocorticoid metabolites (fGCM), a stress-associated biomarker, we...

Data and code for Caves, Dixit, Colebrook-Robjent, Hamusikili, Stevens, Thorogood, and Spottiswoode: Hosts elevate either within-clutch consistency or between-clutch distinctiveness of egg phenotypes in defence against brood parasites

Eleanor Caves, Tanmay Dixit, Martin Stevens, Rose Thorogood & Claire Spottiswoode
In host-parasite arms races, hosts can evolve signatures of identity to enhance detection of parasite mimics. In theory, signatures are most effective when within-individual variation is low (“consistency”), and between-individual variation is high (“distinctiveness”). However, empirical support for positive covariation in signature consistency and distinctiveness across species is mixed. Here we attempt to resolve this puzzle by partitioning distinctiveness according to how it is achieved: (1) greater variation within each trait, contributing to elevated “absolute...

Benzobis(imidazolium)-Cucurbit[8]uril Complexes for Binding and Sensing Aromatic Compounds in Aqueous Solution

Frank Biedermann, Urs Rauwald, Monika Cziferszky, Kyle A. Williams, Lauren D. Gann, Bi Y. Guo, Adam R. Urbach, Christopher W. Bielawski & Oren A. Scherman
Abstract The utilities of benzobis(imidazolium) salts (BBIs) as stable and fluorescent components of supramolecular assemblies involving the macrocyclic host, cucurbit[8]uril (CB[8]), are described...

RESPONDER: Observations of crevasses, crevasse ponding, and surface stress across west Greenland, 2017 - 2019

Thomas Chudley & Poul Christoffersen
Datasets from the Resolving subglacial properties, hydrological networks and dynamic evolution of ice flow on the Greenland Ice Sheet (RESPONDER) project as published in the paper by Chudley et al. entitled "Controls on water storage and drainage in crevasses on the Greenland Ice Sheet". This dataset consists of remotely sensed observations of water-filled crevasses across a marine-terminating sector of the west Greenland Ice Sheet between 2017 and 2019.The dataset presented here includes all data necessary...

Forecasts, neural networks, and results from the paper: 'Seasonal Arctic sea ice forecasting with probabilistic deep learning'

Tom R. Andersson & J. Scott Hosking
This dataset encompasses data produced in the study 'Seasonal Arctic sea ice forecasting with probabilistic deep learning', published in Nature Communications. The study introduces a new Arctic sea ice forecasting AI system, IceNet, which predicts monthly-averaged sea ice probability (SIP; probability of sea ice concentration > 15%) up to 6 months ahead at 25 km resolution. The study demonstrated IceNet's superior seasonal forecasting skill over a state-of-the-art physics-based sea ice forecasting system, ECMWF SEAS5, and...

Phylogenetic conflicts, combinability, and deep phylogenomics in plants

Stephen Smith, Joseph Walker, Joseph Brown & Nathanael Hale
Studies have demonstrated that pervasive gene tree conflict underlies several important phylogenetic relationships where different species tree methods produce conflicting results. Here, we present a means of dissecting the phylogenetic signal for alternative resolutions within a dataset in order to resolve recalcitrant relationships and, importantly, identify what the dataset is unable to resolve. These procedures extend upon methods for isolating conflict and concordance involving specific candidate relationships and can be used to identify systematic error...

Dataset from: Termite mounds house a diversity of taxa in oil palm plantations irrespective of understory management

Amelia S. C. Hood, Michael D. Pashkevich, Cecilia A. L. Dahlsjö, Andreas D. Advento, Anak Agung Ketut Aryawan, Jean‐Pierre Caliman, Mohammad Naim, Jason J. Head & Edgar C. Turner
We investigated the effects of oil palm understory vegetation management on termite mound activity and non-termite inhabitants. We found a diversity of taxa, most of which were unaffected by understory management. Mound volume and termite activity had taxa-specific effects on abundance. Preserving mounds in oil palm plantations will benefit biodiversity.

Data from: Gravity and active acceleration limit the ability of killer flies (Coenosia attenuata) to steer towards prey when attacking from above

Sergio Rossoni, Samuel Fabian, Gregory Sutton & Paloma Gonzalez-Bellido
Insects that predate aerially usually contrast prey against the sky and attack upwards. However, killer flies (Coenosia attenuata) can attack prey flying below them, performing what we term 'aerial dives'. During these dives, killer flies accelerate up to 36 m/s2. Although the trajectories of the killer fly's dives appear highly variable, proportional navigation explains them, as long as the model has the lateral acceleration limit of a real killer fly. The trajectory's steepness is explained...

Metabarcoding for parallel identification of species, sex and diet of obligate scavengers: an application to globally-threatened Gyps vultures

Mousumi Ghosh-Harihar, Nehal Gurung, Harsh Shukla, Ishani Sinha, Awadhesh Pandit, Vibhu Prakash, Rhys E. Green & Uma Ramakrishnan
After suffering a massive decline (~99%) in numbers caused by feeding on livestock carcasses containing the nephrotoxic drug diclofenac, critically endangered Gyps vultures now persist in low numbers in the Indian subcontinent, mostly concentrated within or near National Parks. This spatial association might be attributed to availability of wild ungulate carcasses free from toxic veterinary drugs. Hence, quantification of vulture diets is critical to test this hypothesis. We describe a validated “field-to-benchtop-to-desktop” metabarcoding workflow for...

Data from: Diabetes mellitus, glycemic traits, and cerebrovascular disease: A Mendelian randomization study

Marios Georgakis, Eric Harshfield, Rainer Malik, Nora Franceschini, Claudia Langenberg, Nicholas Wareham, Hugh Markus & Martin Dichgans
Objective: We employed Mendelian randomization (MR) to explore the effects of genetic predisposition to type 2 diabetes (T2D), hyperglycemia, insulin resistance, and β-cell dysfunction on risk of stroke subtypes and related cerebrovascular phenotypes. Methods: We selected instruments for genetic predisposition to T2D (74,124 cases, 824,006 controls), HbA1c levels (n=421,923), fasting glucose levels (n=133,010), insulin resistance (n=108,557), and β-cell dysfunction (n=16,378) based on published genome-wide association studies. Applying two-sample MR, we examined associations with ischemic stroke...

Improving assessments of data-limited populations using life-history theory

Cat Horswill, Andrea Manica, Francis Daunt, Mark Newell, Sarah Wanless, Matthew Wood & Jason Matthiopoulos
1. Predicting how populations may respond to climate change and anthropogenic pressures requires detailed knowledge of demographic traits, such as survival and reproduction. However, the availability of these data varies greatly across space and taxa. Therefore, it is common practice to conduct population assessments by filling in missing values from surrogate species or other populations of the same species. Using these independent surrogate values concurrently with observed data neglects the life‐history trade‐offs that connect the...

Phylogenetic signal and bias in paleontology

Robert Asher & Martin Smith
An unprecedented amount of evidence now illuminates the phylogeny of living mammals and birds on the Tree of Life. We use this tree to measure phylogenetic value of data typically used in paleontology (bones and teeth) from six datasets derived from five published studies. We ask three interrelated questions: 1) Can these data adequately reconstruct known parts of the Tree of Life? 2) Is accuracy generally similar for studies using morphology, or do some morphological...

Data from: 11C-PK11195-PET brain imaging of the mitochondrial translocator protein in mitochondrial disease

Jelle Van Den Ameele, Young T. Hong, Roido Manavaki, Antonina Kouli, Heather Biggs, Zoe McIntyre, Rita Horvath, Patrick Yu-Wai-Man, Evan Reid, Caroline H. Williams-Gray, Edward T. Bullmore, Franklin I. Aigbirhio, Tim D. Fryer & Patrick F. Chinnery
Objective: To explore the possibilities of radioligands against the mitochondrial outer membrane protein TSPO as biomarkers for mitochondrial disease, we performed positron emission tomography (PET)-MR brain imaging with [11C]PK11195 in 14 patients with genetically confirmed mitochondrial disease and 33 matched controls. Methods: A case-control study of PET-MR imaging with the TSPO radioligand [11C]PK11195. Results: 46% of symptomatic patients had volumes of abnormal radiotracer binding greater than the 95th percentile in controls. [11C]PK11195 binding was generally...

Registration Year

  • 2021
    68

Resource Types

  • Dataset
    68

Affiliations

  • University of Cambridge
    67
  • University of Washington
    4
  • Lund University
    3
  • British Antarctic Survey
    3
  • Natural Environment Research Council, UK Research & Innovation
    3
  • University of Zurich
    3
  • University of Glasgow
    2
  • University of California, San Diego
    2
  • Oklahoma State University
    2
  • Macquarie University
    2