19 Works

Data from: Connectivity in the cold: the comparative population genetics of vent-endemic fauna in the Scotia Sea, Southern Ocean.

Christopher N. Roterman, Jon T. Copley, Katrin T. Linse, Paul A. Tyler & Alex D. Rogers
We report the first comparative population genetics study for vent fauna in the Southern Ocean using cytochrome C oxidase I and microsatellite markers. Three species are examined: the kiwaid squat lobster, Kiwa tyleri, the peltospirid gastropod Gigantopelta chessoia and a lepetodrilid limpet, Lepetodrilus sp. collected from vent fields 440 km apart on the East Scotia Ridge (ESR) and from the Kemp Caldera on the South Sandwich Island Arc, ~95 km eastwards. We report no differentiation...

Sanitary risk inspections of shallow wells, boreholes and springs in Kisumu, Kenya in 2014

J. Okotto-Okotto, S. Pedley, L.G. Okotto, H. Price & J. Wright
This dataset contains the results of a sanitary risk inspection for different groundwater sources in Kisumu, Kenya. A total of 70 groundwater sources were surveyed between February and March 2014. The survey took the form of an observation checklist that identified contamination hazards at well heads and in their immediate surroundings. Data on well depth, electro-conductivity, pH and temperature were also collected. The data were collected as part of the Groundwater2030 project, which aims to...

Nutrient chemistry of Arctic Lakes in Greenland, Norway, Russia and Alaska

E. J. Whiteford, M. Van Hardenbroek, S. McGowan, V. J. Jones, M.E. Edwards, P. G. Langdon & N. J. Anderson
This dataset contains nutrient chemistry data from 14 lakes in the Arctic region: 4 in Russia and Alaska and 3 in Greenland and Norway. Nutrient chemistry was measured on one occasion only at each lake, with date of collection ranging from 01/04/2011 to 14/03/2014. The following nutrients were measured: total phosphorus, soluble reactive phosphorus, total nitrogen, nitrate, ammonium, chlorophyll a, silicate, sodium, magnesium, potassium, calcium, sulphate, chloride and dissolved organic carbon. All nutrients were measured...

Data from: The genomes of two key bumblebee species with primitive eusocial organisation

Ben M. Sadd, Seth M. Barribeau, Guy Bloch, Dirk C. De Graaf, Peter Dearden, Christine Elsik, Jurgen Gadau, Cornelius Grimmelikhuijzen, Martin Hasselmann, Jeffrey Lozier, Hugh Robertson, Guy Smagghe, Eckart Stolle, Matthias Van Vaerenbergh, Robert Waterhouse, Erich Bornberg-Bauer, Steffan Klasberg, Anna Bennett, Francisco Camara, Roderic Guigo, Katharina Hoff, Marco Mariotti, Monica Munos-Torres, Terence Murphy, Didac Santesmasses … & Kim C. Worley
Background: The shift from solitary to social behavior is one of the major evolutionary transitions. Primitively eusocial bumblebees are uniquely placed to illuminate the evolution of highly eusocial insect societies. Bumblebees are also invaluable natural and agricultural pollinators, and there is widespread concern over recent population declines in some species. High-quality genomic data will inform key aspects of bumblebee biology, including susceptibility to implicated population viability threats. Results: We report the high quality draft genome...

Data from: Supporting local diversity of habitats and species on farmland: a comparison of three wildlife-friendly schemes

Chloe J. Hardman, Dominic P. G. Harrison, Pete J. Shaw, Tim D. Nevard, Brin Hughes, Simon G. Potts, Ken Norris & Dominic P.G. Harrison
Restoration and maintenance of habitat diversity have been suggested as conservation priorities in farmed landscapes, but how this should be achieved and at what scale are unclear. This study makes a novel comparison of the effectiveness of three wildlife-friendly farming schemes for supporting local habitat diversity and species richness on 12 farms in England. The schemes were: (i) Conservation Grade (Conservation Grade: a prescriptive, non-organic, biodiversity-focused scheme), (ii) organic agriculture and (iii) a baseline of...

Data from: Determinants of male floating behaviour and floater reproduction in a threatened population of the hihi (Notiomystis cincta)

Patricia Brekke, John G. Ewen, Gemma Clucas & Anna W. Santure
Floating males are usually thought of as non-breeders. However, some floating individuals are able to reproduce through extra-pair copulations. Floater reproductive success can impact breeders’ sex-ratio, reproductive variance, multiple paternity and inbreeding, particularly in small populations. Changes in reproductive variance alter the rate of genetic drift and loss of genetic diversity. Therefore, genetic management of threatened species requires an understanding of floater reproduction and determinants of floating behaviour to effectively conserve species. Here, we used...

Data from: Transcriptome sequencing and marker development for four underutilized legumes

Mark A. Chapman
Premise of the study: Combating threats to food and nutrition security in the context of climate change and global population increase is one of the highest priorities of major international organizations. Hundreds of species are grown on a small scale in some of the most drought/flood-prone regions of the world and as such may harbor some of the most environmentally tolerant crops (and alleles). Methods and Results: In this study, transcriptomes were sequenced, assembled, and...

Data from: Basking sharks and oceanographic fronts: quantifying associations in the north-east Atlantic

Peter I. Miller, Kylie L. Scales, Simon N. Ingram, Emily J. Southall & David W. Sims
1. Understanding the mechanisms that link oceanographic processes and marine vertebrate space use is critical to our knowledge of marine ecosystem functioning, and for effective management of populations of conservation concern. 2. The basking shark Cetorhinus maximus has been observed in association with oceanographic fronts – physical interfaces at the transitions between water masses – exploiting foraging opportunities resulting from zooplankton aggregation. However, the scale, significance and variability of these associations have not previously been...

Data from: Mapping beta diversity from space: Sparse Generalized Dissimilarity Modelling (SGDM) for analysing high-dimensional data

Pedro J. Leitão, Stefan Suess, Marcel Schwieder, Inês Catry, Edward Milton, Francisco Moreira, Patrick E. Osborne, Manuel J. Pinto, Sebastian Van Der Linden, Patrick Hostert & Edward J. Milton
1. Spatial patterns of community composition turnover (beta diversity) may be mapped through Generalised Dissimilarity Modelling (GDM). While remote sensing data are adequate to describe these patterns, the often high-dimensional nature of these data poses some analytical challenges, potentially resulting in loss of generality. This may hinder the use of such data for mapping and monitoring beta-diversity patterns. 2. This study presents Sparse Generalised Dissimilarity Modelling (SGDM), a methodological framework designed to improve the use...

Data from: Genetic and morphological differentiation in Populus nigra L.: isolation by colonization or isolation by adaptation?

Jennifer DeWoody, Harriet Trewin & Gail Taylor
Identifying processes underlying the genetic and morphological differences among populations is a central question of evolutionary biology. Forest trees typically contain high levels of neutral genetic variation, and genetic differences are often correlated with geographic distance between populations [isolation by distance (IBD)] or are due to historic vicariance events [isolation by colonization (IBC)]. In contrast, morphological differences are largely due to local adaptation. Here, we examined genetic (microsatellite) and morphological (from a common garden experiment)...

Socio-economic survey of domestic groundwater handling and use for source owners in Kisumu, Kenya in 2014

L. Okotto, J. Okotto-Okotto, H. Price, S. Pedley & J. Wright
This datasets contains the anonymised results of a survey of well owners in Kisumu, Kenya. Data includes information on the amount of water abstracted daily from the well and ways in which this water was used and handled, information on other sources of water (e.g. piped utility water and rainwater) and how this is used, and the assets and services that the well owner has access to. Answers from questions to assess food poverty are...

Data from: Response of seaward migrating European eel (Anguilla anguilla) to manipulated flow fields

Adam T. Piper, Costantino Manes, Fabio Siniscalchi, Andrea Marion, Rosalind M. Wright & Paul S. Kemp
Anthropogenic structures (e.g. weirs and dams) fragment river networks and restrict the movement of migratory fish. Poor understanding of behavioural response to hydrodynamic cues at structures currently limits the development of effective barrier mitigation measures. This study aimed to assess the effect of flow constriction and associated flow patterns on eel behaviour during downstream migration. In a field experiment, we tracked the movements of 40 tagged adult European eels (Anguilla anguilla) through the forebay of...

Data from: TAPBPR alters MHC class I peptide presentation by functioning as a peptide exchange catalyst

Clemens Hermann, Andy Van Hateren, Nico Trautwein, Andreas Neerincx, Patrick J. Duriez, Stefan Stevanović, John Trowsdale, Janet E. Deane, Tim Elliott & Louise H. Boyle
Our understanding of the antigen presentation pathway has recently been enhanced with the identification that the tapasin-related protein TAPBPR is a second MHC I-specific chaperone. We sought to determine whether, like tapasin, TAPBPR can also influence MHC I peptide selection by functioning as a peptide exchange catalyst. We show that TAPBPR can catalyse the dissociation of peptides from peptide-MHC I complexes, enhance the loading of peptide-receptive MHC I molecules, and discriminate between peptides based on...

Data from: The role of ontogeny in physiological tolerance: decreasing hydrostatic pressure tolerance with development in the northern stone crab Lithodes maja

Catriona Munro, James P. Morris, Alastair Brown, Chris Hauton & Sven Thatje
Extant deep-sea invertebrate fauna represent both ancient and recent invasions from shallow-water habitats. Hydrostatic pressure may present a significant physiological challenge to organisms seeking to colonize deeper waters or migrate ontogenetically. Pressure may be a key factor contributing to bottlenecks in the radiation of taxa and potentially drive speciation. Here, we assess shifts in the tolerance of hydrostatic pressure through early ontogeny of the northern stone crab Lithodes maja, which occupies a depth range of...

Data from: Early Pennsylvanian (Langsettian) fish assemblages from the Joggins Formation, Canada, and their implications for palaeoecology and palaeogeography

David K. Carpenter, Howard J. Falcon-Lang, Michael J. Benton & Melissa Grey
A review of all available specimens of fossil fishes from the classic Pennsylvanian Joggins locality of Nova Scotia, Canada, reveals the existence of a diverse community of chondrichthyans (xenacanthids, ctenacanthids and the enigmatic Ageleodus), acanthodians (gyracanthids), sarcopterygians (rhizodontids, megalichthyids, rhizodopsids and dipnoans) and actinopterygians (haplolepids). Reassessment of supposed endemic species (Ctenoptychius cristatus, Sagenodus plicatus, Gyracanthus duplicatus) indicates they are invalid, and overall, the assemblage comprises cosmopolitan taxa that were widespread around the coasts of tropical...

Socio-economic survey of domestic groundwater handling and use for source customers in Kisumu, Kenya in 2014

L.G. Okotto, J. Okotto-Okotto, H. Price, S. Pedley & J. Wright
This dataset contains the anonymised results of a survey of customers who buy groundwater for consumption in Kisumu, Kenya. Data includes information on the amount of water bought and ways in which this water was used and handled, as well as their use of water from other sources. Data about assets and services, including access to food, are also included. The surveys were carried out during February and March 2014 and include data from 137...

Groundwater microbiology and chemistry of shallow wells, boreholes and springs in Kisumu, Kenya in 2014

S. Pedley, J. Okotto-Okotto, L. Okotto, H. Price & J. Wright
This dataset contains free residual chlorine, turbidity, nitrate, chloride, sulphate, fluoride, phosphate and thermatolerant coliform concentrations in groundwater from a variety of sources within two neighbourhoods of Kisumu, Kenya. A total of 73 groundwater sources were tested between February and March 2014. The data were collected as part of the Groundwater2030 project, which aims to reduce the health problems that result from consumption of contaminated groundwater in urban areas of Africa. The project was co-ordinated...

Data from: Quantifying physiological influences on otolith microchemistry

Anna M. Sturrock, Ewan Hunter, J. Andrew Milton, Edinburgh Ion Microprobe Facility, Rachel C. Johnson, Colin P. Waring & Clive N. Trueman
1. Trace element concentrations in fish earstones (“otoliths”) are widely used to discriminate spatially discrete populations or individuals of marine fish, based on a commonly held assumption that physiological influences on otolith composition are minor, and thus variations in otolith elemental chemistry primarily reflect changes in ambient water chemistry. 2. We carried out a long-term (1-yr) experiment, serially sampling seawater, blood plasma and otoliths of mature and immature European plaice (Pleuronectes platessa L.) to test...

Data from: New resources for genetic studies in Populus nigra: genome wide SNP discovery and development of a 12k Infinium array

P. Faivre Rampant, G. Zaina, V. Jorge, S. Giacomello, V. Segura, S. Scalabrin, V. Guérin, E. De Paoli, C. Aluome, M. Viger, F. Cattonaro, A. Payne, P. PaulStephenRaj, MC. Le Paslier, A. Berard, M. R. Allwright, M. Villar, G. Taylor, C. Bastien, M. Morgante, P. Faivre-Rampant & M. C. Le Paslier
Whole genome resequencing of 51 Populus nigra (L.) individuals from across Western Europe was performed using Illumina platforms. A total number of 1,878,727 SNPs distributed along the P. nigra reference sequence were identified. The SNP calling accuracy was validated with Sanger sequencing. SNPs were selected within 14 previously identified QTL regions; 2916 expressional candidate genes related to rust resistance, wood properties, water-use efficiency and bud phenology and 1732 genes randomly spread across the genome. Over...

Registration Year

  • 2015

Resource Types

  • Dataset


  • University of Southampton
  • University of Surrey
  • Jaramogi Oginga Odinga University of Science and Technology
  • Zoological Society of London
  • University College London
  • University of Padua
  • Centre National de Génotypage
  • Federal Institute of São Paulo
  • National Oceanography Centre
  • Plymouth University