cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5285/d301c5f5-77f5-41ba-934e-a80e1293d4cd
title: Physical and geochemical properties of saltmarsh soils from narrow diameter gouge cores in UK saltmarshes collected between 2018 and 2021

description: The dataset comprises of physical and biogeochemical measurements of saltmarsh soils from across 22 UK saltmarshes. Between 2018 and 2021, 462 narrow diameter gouge cores (30 mm in diameter) were collected as part of the Carbon Storage in Intertidal Environments (C-SIDE) project to facilitate the calculation of saltmarsh soil organic carbon stocks. Sites were chosen to represent contrasting habitats types in the UK, in particular sediment types, vegetation and sea level history. The data provides a quantitative measure of soil dry bulk density and organic carbon content across varies substrate and marsh types.

The work was carried out under the NERC programme - Carbon Storage in Intertidal Environment (C-SIDE), NERC grant reference NE/R010846/1.

description: Across 22 UK saltmarshes 462 narrow diameter (30mm) soil cores were collected, the cores were described in the field following the Troels-Smith scheme. The cores were sub-sampled in the field at 10cm intervals resulting in 3434 samples. The location of each coring site was recorded using DGPS. Prior to analysis the samples were stored at 4 degrees Celsius at the University of St Andrews. Soil dry bulk density and organic carbon content was measured using standard analytical procedures (detailed in the supporting documentation). All laboratory equipment were calibrated in accordance with the laboratory practises at the University of St Andrews. Results were recorded on to lab sheets and transferred into an Excel file. Results were exported as comma separated value (.csv) files for ingestion into the EIDC.
DOI: 10.5285/27a84ac6-c3fd-4c86-9540-f60b4dbfa14f
title: Yorkshire Derwent catchment sediment fingerprinting of instream sediment and catchment soils

description: Sediment and soil samples were collected during a six-month project in 2018 looking at the sources of sediment within the River Derwent Catchment, Yorkshire, UK. The data shows the mineralogical composition of each sample site, processed using X-ray powder diffraction (XRD).  The data has been used to understand where instream sediment in the River Derwent is coming from. This information can be used to inform catchment management. 
description: Sixty samples across the River Derwent Catchment, UK; the sample sites were chosen as case study sub-catchments in the catchment to ground truth erosion risk mapping work carried out. The sub-catchments show areas within the catchment that have a range of erosion risk and underlying geology. Samples were collected in the field. The sample was crushed and a sub-sample was processed in a laboratory using X-ray powder diffraction (XRD). The data is the raw output from the XRD (2 theta values and the count). This data is used to identify the different minerals present within the sample used for sediment fingerprinting.
DOI: 10.5285/7c84e06d-bb1a-4aac-b1d7-33c11310d8a0
title: Non-native plant species GIS data from Cyprus Sovereign Base Areas, October 2015 and March 2017

description: This dataset comprises forest stand and species occurrence data for a selection of non-native species collected in the UK Sovereign Base Areas (SBA) of Cyprus in October 2015 and March 2017, with a particular focus on the area surrounding Lake Akrotiri in the Western SBA. The main focus for mapping was stands of Acacia saligna, Casuarina cunninghamiana, the eucalypts Eucalyptus camaldulensis and E. gomphocephala, and the forb Symphyotrichum squamatum. The typical accuracy of data capture was around 10-15 m precision, varying according to the presence of forest canopy. 
description: The data were captured in the field on GPS-enabled ruggedised tablet computers. The typical accuracy of data capture was around 10-15 m precision, varying according to the presence of forest canopy. Plant species determinations were checked against standard Floras and other guides, both in the field and using specimens, with the authors working together to unify determinations across the project.
DOI: 10.5285/81a1301f-e5e2-44f9-afe0-0ea5bb08010f
title: Dry bulk density, loss on ignition and organic carbon content of surficial soils from Scottish salt marshes, 2018-2019

description: The dataset comprises of biogeochemical measurements of saltmarsh soil collected from 46 salt marshes across Scotland. Sites were chosen to represent contrasting habitats across Scotland, in particular sediment types, vegetation and sea level history. The data provide a quantitative measure of the dry bulk density, soil texture, organic matter content (LOI) and organic carbon present within surface soils (up to a depth of 10 cm). A total of 471 samples were collected, 157 of the samples were collected using modified syringe samplers as part of the citizen scientist programme CarbonQuest (Part of C-SIDE) these were supplemented by a further 109  samples from the C-SIDE team. The remaining 205 samples were collected using a soil corer (Gouge) as part of the C-SIDE sampling programme. The samples were processed for bulk density, soil texture, organic matter content using the Loss on Ignition (LOI) method and the organic carbon was quantified through elemental analysis. The data were collected to help create a detailed picture of saltmarsh carbon storage across Scotland.

The work was carried out under the NERC programme - Carbon Storage in Intertidal Environment (C-SIDE), NERC grant reference NE/R010846/1

description: Soil cores were taken at each sampling location using a modified syringe corer (50ml) or a  soil corer (30mm Gouge). The location of the sample was recorded using GPS. Prior to analysis the samples were stored at -20 degrees Celsius at the University of St Andrews. Dry bulk density, soil texture, organic matter content and organic carbon data was produced using standard analytical procedures (detailed in the supporting documentation). All laboratory equipment were calibrated in accordance with the laboratory practises at the University of St Andrews. Results were recorded on to lab sheets and transferred into an Excel file. Results were exported as comma separated value (.csv) file for ingestion into the EIDC.
DOI: 10.5285/249034d3-2f4d-42c6-a3cd-113ff3a960c5
title:  Monthly field and dark adapted pulse amplitude modulation (PAM) fluorescence measurements of East Anglian mosses, April 2017 to October 2018

description: The dataset contains monthly measurements of chlorophyll fluorescence measured using a Walz MINI-PAM II. The chlorophyll flouresence of growing tips of moss samples were measured  following saturating pulses three times in the field before dark adaptation three further measurements. Yield of photosystem II, non-photochemical quenching  and electron transport rate were calculated.

Field work was carried out approximately monthly from April 2017 until September 2018.
description: Data was collected by the authors. As data were generated checks were made to ensure accuracy (certified reference materials used in isotope analysis) and precision (repeat measurements) were within tolerance limits.
DOI: 10.5285/9e14539e-b376-4a70-87a0-f8725f84bae9
title: Eddy covariance measurements of carbon dioxide, energy and water fluxes at a commercial short rotation coppice willow plantation, Lincolnshire, UK, 2009 to 2013

description: This dataset contains time series observations of surface-atmosphere exchanges of net ecosystem carbon dioxide exchange (NEE), sensible heat (H) and latent heat (LE), and momentum (τ) measured at a short rotation coppice willow plantation in Lincolnshire, UK. Turbulent flux densities were monitored using the micrometeorological eddy covariance (EC) technique between 13th October 2009 and 15th May 2013. The dataset includes ancillary weather and soil physics observations, as well as variables describing atmospheric turbulence and the quality of the turbulent flux observations.

This work was supported by the Natural Environment Research Council award number NE/R016429/1 as part of the UK-SCAPE programme delivering National Capability.
description: Eddy covariance (EC) and micrometeorological observations were made above the willow canopy using an open-path eddy covariance system. Ancillary meteorological and soil physics observations were made from a scaffold tower at the northern end of the plantation.

Turbulent flux densities were calculated from the raw EC data using the EddyPRO® Flux Calculation Software Version 6.1. 

Quality Control of EC data involved removal of statistical outliers and tests that theoretical requirements for the successful application of the EC technique were not violated significantly. Data gaps in EC data (NEE, LE, H) and the partitioning of NEE into gross ecosystem production and total ecosystem production were performed using the REddyProc Package for R (Reichstein et al., 2019). 

Further details are available in the supporting documentation.
DOI: 10.5285/43487d30-ba23-424e-a2bb-d04dd121875c
title: Perfluorinated compounds (PFCs) in eggs of the northern gannet (Morus bassanus) from two UK colonies, 1977-2014

description: Data comprise concentrations of Perfluorinated compounds in the eggs of the marine sentinel species the Northern gannet (Morus bassanus), from colonies in Ailsa Craig in the Irish Sea (eastern Atlantic), and Bass Rock in the North Sea, United Kingdom. The study reports concentrations of eight perfluorinated carboxylic acids (PFCAs) and three perfluorinated sulfonates (PFSs), for 1977-2014. The data is part of the Predatory Bird Monitoring Scheme (PBMS).
description: Fresh eggs are collected by licensed egg collectors and are sent to the Predatory Bird Monitoring Scheme (PBMS) at UKCEH Lancaster. The contents of the eggs are sampled and are 1) analysed by the UKCEH Centralised Analytical Chemistry and 2) retained for archive purposes. The biometric data (whole egg weight, length and breadth, etc) are recorded on a MSAccess form which uploads directly to an Oracle database. Chemistry batch files containing concentrations of the different contaminants in tissues and eggs are loaded directly into an Oracle database.
DOI: 10.5285/b27ce2ee-89ee-428d-bcd5-4abd97141d62
title: Groundwater bacterioplankton, fluorescent organic matter and nutrient concentration of three major aquifers in England, September-October 2022 and January-February 2023

description: This dataset contains information about planktonic bacterial quantity at the drinking water pumping stations installed in three different aquifer types of England. The aim of data collection was to assess spatial and seasonal variation of groundwater bacterioplankton distribution and their dependence on organic matter, nutrient concentration and local hydrogeology. Untreated groundwater samples were collected from the intergranular sandstone aquifer of English Midlands and East Midlands, the dual porosity chalk aquifer of South East England and the karstic limestone aquifer of the Cotswolds. For temporal variation in each aquifer, the same aquifers were sampled during pre-recharge season in September-October 2022 and post-recharge season in January-February 2023. 
description: Groundwater bacterioplankton concentration distribution in drinking water sources are poorly characterised. Therefore we collected groundwater samples form drinking water pumping stations installed in Permo-Triassic sandstone aquifer of English Midlands and East Midlands, Cretaceous Chalk aquifer of South-East England and Jurassic Limestone aquifer of Cotswold, each with distinct aquifer properties.  From the intergranular sandstone, dual porosity chalk, and karstic limestone aquifers 29 , 32 , and 8  sites respectively were sampled in the pre-recharge and 34, 33, and 8 sites respectively were sampled in the peak-recharge seasons. 
The bacterioplankton total cell concentration (TCC), high nucleic acid cell percentage (%HNA) and intact bacterial cell percentage (%ICC) were measured used Attune Cytpix Flow Cytometer. The data was collected in triplicate, filtered noisy data by manual inspection, and the current data contains average values from the triplicate and standard deviations of the replicated. Fluorescence organic matter (fOM) loading and fluorescence indices were measured using an Aqualog® fluorimeter (Horiba Scientific, Japan). Raw data was processed and PARAFAC analysis was performed using R package staRdom to find the fOM loading values. Dissolved organic carbon (DOC) and total dissolved nitrogen (TDN) concentrations were measured on filtered groundwater samples using an Elementar Vario Cube (Elementar Ananlysensysteme GmbH; Langenselbold, Germany). Borehole depth, perforation depth, were assessed using BGS borehole logs. Confinement and surface water vulnerability interpretations were provided by respective water companies.
DOI: 10.5285/856d0d16-53fe-4560-8976-b4bc75d37adc
title: Carbon dioxide and methane fluxes and associated environmental observations during use as plantation forest on peat bog, Forsinard Flows RSPB Reserve, Scotland, 2016-2017

description: This dataset contains measurements of greenhouse gas exchange (carbon dioxide and methane) over a plantation forest on peat, in the Flow Country, Caithness and Sutherland. It contains eddy-covariance and associated meteorological and pedological measurements from 2016/01/01 to 2017/12/31 at half hourly intervals. The time series has been gap filled to allow the calculation of annual budgets for carbon exchange.

The site reference is UK-DKE ( http://www.europe-fluxdata.eu/home/sites-list )
description: The site was first installed in May 2016 by University of Highlands and Islands (UHI) on a triangular lattice mast ~20 m tall. At the time this area was forested with commercial non-native tree species which were harvested in November 2017.  It is currently managed by the James Hutton Institute (Aberdeen) as part of the SCO2FLUX network with supporting funding from NERC (Mothership Project) and SRES (CentrePeat project). University of the Highlands and Islands and the RSPB (Royal Society for the Protection of Birds) continue to support maintenance of the site as local site operators.

Measurements are made using standard instrumentation, retrieved remotely at regular intervals and processed using protocols similar to those defined by the FluxNet and Integrated Carbon Observation Systems (ICOS) projects.

A subset of these data, which submitted previously, will differ slightly from this version as QA/QC procedures have been updated and refined (https://doi.org/10.5285/d4a7ca90-0c62-4a31-986e-f433e1644bf3 )
DOI: 10.5285/382baaf2-7795-4aa8-a434-56c9e6bd1516
title: Growth and physiological measurements of Leontodon hispidus and Succisa pratensis after ozone exposure and elevated nitrogen input from an ozone field release system, North Wales, 2016-2018

description: The data presented are growth and physiological measurements from an ozone exposure experiment, during which grassland forbs, Leontodon hispidus and Succisa pratensis were exposed to low, medium and high ozone treatments over three growing seasons, using an outdoor Free Air Ozone Enrichment system, and with and without the addition of nitrogen during the first year.

The plants were planted in April 2016 and were exposed to Low, Medium and High ozone treatments over three growing seasons (May to September 2016-2018).
Measurements were taken of light-saturated photosynthesis, stomatal conductance, chlorophyll index, number of flowering stems, leaf ground cover, and the dried weight of litter. All measurements were made by members of the project. The experiments were carried out in the UKCEH Bangor Air Pollution Facility. Work was funded by the UK Centre for Ecology & Hydrology under the Natural Environment Research Council (UK) grant/award NEC05574.

For L. hispidus a lower leaf cover was observed with elevated ozone, and there was an increase in litter with added nitrogen. For S. pratensis, elevated ozone reduced flowering and increased foliar damage. Increased litter and accelerated winter die-back with both ozone and nitrogen were also recorded for S. pratensis.
These effects have implications for inter- and intra-specific competition, seed establishment, nutrient cycling, as well as the provision of general pollinator resources and highlight the need for concerted action to reduce pre-cursor ozone emissions to go alongside habitat management efforts to protect biodiversity.
description: The plants were planted directly into the ground in 1m separate square blocks, with the two species alternating in a Latin square design, within nine Free Air Ozone Enrichment (FAOE) rings (4m diameter). Plants were exposed to low, medium and high ozone treatments over three growing seasons (May to September 2016-2018, treatment means: 24, 40 and 57 parts per billion, respectively), with and without the addition of nitrogen (40 kg ha-1 yr-1) during the first year.  Irrigation occurred naturally from precipitation, and no supplementary watering was required apart from that associated with the nitrogen addition.

Light-saturated photosynthesis and stomatal conductance was recorded on healthy leaves using a LI-COR 6400XT. The chlorophyll index was measured on healthy leaves using an Opti-Sciences CCM200 meter. Plants were oven-dried at 60 degrees Celsius to determine dry weight. Ground cover was determined from grids (containing 100 squares) overlain onto photographs of the plant blocks, with total leaf area and the proportion of damaged leaves assessed.

Data was recorded onto field sheets and transferred to Excel sheets and subsequently exported to comma separated value files for deposit into the EIDC.
DOI: 10.5285/c75ac806-2968-4bf0-8c72-ed4e0dc2ed7e
title: Micro-computed tomography (micro-CT) 3D scans of skulls of Passer sparrows generated during a crossing experiment

description: This dataset comprises MicroCT 3D scans of skulls from Passer sparrows (Passer domesticus, P. hispaniolensis, P. italiae and F1 hybrids) generated during a crossing experiment at the University of Oslo, Norway in 2014/2015.

Skulls were scanned with a microCT scanner at the University of Nottingham in 2023. 
description: Samples were derived from the collection at the Natural History Museum, Oslo, Norway. All samples were scanned with the use of a high-resolution X-ray Waygate Technologies v|tome|x M 240kV CT system at 26μA at the Hounsfield Facility on the Sutton Bonnington Campus of the University of Nottingham, UK.
DOI: 10.5285/475d6c02-45bb-4ac4-a31a-4a23c7c9cb2e
title: Untargeted metabolomic profiles of paired cultures of four strains of Streptomyces bacteria isolated from a nature reserve in Minnesota, USA

description: This dataset contains untargeted metabolomic profiles of paired cultures of 4 interacting Streptomyces bacteria. The bacteria were originally isolated from a nature reserve in Minnesota USA. Daily samples of spot cultures grown in adjacent pairs on solid ISP2 medium were taken from day 2 to 6 in triplicate. Metabolites were obtained by cold methanol extraction, and liquid chromatography-mass spectrometry data was collected in both positive and negative ionisation modes. This dataset contains raw LC-MS (liquid chromatography mass spectrometry) data converted to the open-source .mzML format, of each sample run in both positive and negative ionisation modes. This includes, mass-to-charge measurements, elution time, and ion count intensity. These data were collected to investigate how the metabolism of the interacting strains changes in response to neighbouring bacterial cultures.
This work was funded by NERC (NE/T010959/1) and National Science Foundation (USA, 1935458).

description: The 4 Streptomyces strains were previously isolated from Minnesota soil as described in Schlatter, D.C. et al (2013), co-culturing, metabolite extraction and LC-MS experiments were performed in the Manchester Institute of Biotechnology, University of Manchester, UK. Data was collected on a Q-Exactive Mass Spectrometer (ThermoFisher). Outputs were converted to mzML format by the ProteoWizard MS converter. Pooled quality control samples were analysed at every 6th injection to assess for analytical drift over time. The sample injection sequence was randomised.
DOI: 10.5285/976602b3-a58d-460c-a52d-088d0bb09989
title: Carbon and nitrogen cycling in river sediments over a seasonal cycle in the Hampshire Avon catchment

description: Data on the carbon and nitrogen cycling in sediments from rivers within the Hampshire Avon catchment, UK. The dataset includes functional gene data, anion and cation concentrations, methane production and oxidation potential, carbohydrates concentrations, pigment data, and particle size data. Data were collected between February 2013 and November 2014. Data were collected to address the hypotheses of how the functional microbial community involved in carbon and nitrogen cycling changed seasonally and with geology. Data were collected as part of the project "The role of lateral exchange in modulating the seaward flux of C, N, P", funded under NERC's Macronutrients Cycles research programme.
description: At each site, five sediment cores (internal diameter 8cm) were taken within a 25m long river reach. From this core, four sub-cores (internal diameter 2cm) were taken in order to pair measurements. Sub-cores were stored depending on what analysis was done. All data were collected using standard methodologies as detailed in the supporting information.
DOI: 10.5285/ee145769-2853-4a89-8aa6-c4a5149d07c0
title: Pollinator effectiveness in oilseed rape (Brassica napus L.) in relation to behavioural and morphological characteristics

description: The number of pollen grains delivered to stigmas in a single visit by flower visitors (from insect orders Coleoptera, Hymenoptera and Diptera) to oilseed rape (Brassica napus L.) in southern England. Behavioural and morphological data were also recorded for a subset of visits to understand common traits which led to improved pollen delivery. 

These data were collected as part of Wessex BESS project, funded by the NERC Biodiversity and Ecosystem Service Sustainability research program.  This dataset can be used in conjunction with other Wessex BESS datasets, in particular the landscape scale survey of pollinators. 
description: Set protocols for field data collection and laboratory data collection were followed with datasheets provided for each collection type. Data were entered in MS Access and anomalous entries were checked for.
DOI: 10.5285/64a8cef6-2d5b-452b-8f60-0cfa85ae51bc
title: Benthic biofilm chlorophyll a content and biomass data for 3 intensively studied Wessex chalkstream sites, England, UK

description: Chlorophyll-a content and ash-free dry mass of quantitative samples of the biofilm on benthic substrate from three chalkstream sites in the Wessex chalk area (Nine Mile River, River Till and River Wylye). Chlorophyll a content and biomass were determined from up to 10 replicate samples at each site on each sampling occasion. The data are presented as means with standard deviation. Data were collected on seven occasions on the Wylye and Nine Mile River and on five occasions on the Till, between October 2012 and October 2013. Data were collected to construct quantified food webs detailing the flux of mass and nutrients between nodes of the food web. This dataset was created as part of work package 3.2 of the Wessex Biodiversity & Ecosystem Service Sustainability (BESS) project.
description: Samples were collected on 7 separate occasions from Nine Mile River and the River Wyle.  However samples were only collected on five occasions from the River Till.  We did not sample this river during the salmonid breeding season Dec-Mar so as not to disturb redds.  Also two replicate chlorophyll-a samples were not processed from Nine Mile River in March 2013.

Standard laboratory procedures for determining chlorophyll-a and ash-free dry mass (AFDM) content were strictly followed but there was no formal quality assurance procedure, such as repeat analysis of replicate aliquots from the same replicate scrap.  Final values were checked for marked outliers (none were found) before calculations were undertaken.