cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5285/69402002-1676-4de9-a04e-d17e827db93c
title: Nectar sugar values of common British plant species [AgriLand]

description: This dataset consists of nectar sugar values of common British plant species. The data were collected during field surveys taking place from February to October in 2011 and 2012. The majority of field sites were located in the south of England. The data were collected under a project named 'Agriland' ( Linking agriculture and land use change to pollinator populations) based at the University of Bristol, as part of the UK Insect Pollinators Initiative. The Insect Pollinators Initiative (IPI) was funded by Biotechnology and Biological Sciences Research Council (BBSRC), Natural Environment Research Council (NERC), Department for Environment, Food and Rural Affairs (Defra), the Scottish Government and the Wellcome Trust, under the auspices of the Living With Environmental Change (LWEC) partnership.
description: The data were collected during field surveys taking place from February to October in 2011 and 2012. The majority of field sites were located in the south of England. For each species, one or two field populations, in one or two distinct locations, were monitored for the study. For further information, see the Online Supporting Documentation.
DOI: 10.5285/977c422d-8529-432d-85d7-5de3c8dfdc5d
title: Alpine grassland soil microbial and biogeochemical data from a climate change and shrub expansion experiment in Tyrol, Austria, July 2019

description: Data comprise soil microbial and biogeochemical data collected during a climate and vegetation change experiment conducted across three valleys in Tyrol, in the Austrian Alps. Sites were located near the villages of Obergurgl (lat., long. = 46.844833, 11.023783; mean elevation = 2279m), Soelden (46.978367, 10.972217, mean elevation = 2469m) and Vent (46.863217, 10.896800, mean elevation = 2472m).

Soil microbial data include phospholipid fatty acid (PLFA) analyses, and bacterial (16S Small subunit ribosomal RNA) and fungal (internal transcribed spacer region 2) high throughput sequences. Soil biogeochemical data include soil extracellular enzyme activities, soil pH, gravimetric moisture content and various C and N pools and fluxes.

The experiment was funded by NERC project NE/N009452/1.
description: All data were collected by the authors according to standardised protocols. Soil was sampled on 22nd - 24th July 2019 by taking soil cores (Ø = 2 cm, depth = 10 cm) using a steel corer from five random locations in each plot (plot size = 2m x 2m). Soil cores from the same plot were pooled and homogenised, any vegetation or litter was separated and discarded. Sub-samples (approx. 200 mg) were directly taken and lysed in the field for molecular analyses. Soil samples were sieved (4 mm), stored at 4°C for up to 2 weeks, and shipped to The University of Manchester (UK) Soil and Ecosystem Ecology Lab for extracellular soil enzyme and biogeochemical analyses. Lysed soil samples for molecular analyses were stored at -80°C and shipped to UKCEH Wallingford for DNA extraction and sequencing. We ensured all measured values fit within those of calibration standards. All calculations were checked for errors before data was accepted and data were checked for any anomalies.
DOI: 10.5285/9a62bb8a-dd88-42d2-9af2-25ec338110e6
title: Labile, recalcitrant, and refractory organic matter in soil samples from UK saltmarshes collected between 2018 and 2021

description: The dataset details the quantification of three different pools of organic matter (labile, recalcitrant, and refractory) within 1211 down core soil samples collect from across UK saltmarsh sites between 2018 - 2021. Additionally, the dataset presents a measure of organic matter reactivity using the carbon reactivity index (CRI).

The work was carried out under the NERC programme - Carbon Storage in Intertidal Environment (C-SIDE), NERC grant reference NE/R010846/1
description: Across UK saltmarshes wide diameter (60mm) soil cores were collected. The location of each coring site was recorded using Differential Global Positioning System (DGPS). Prior to analysis the samples were stored at 4 degrees Celsius at the University of St Andrews. Upon return to the laboratory the cores were described following the Troels-Smith scheme. The cores were sub-sampled at 1cm intervals resulting in 1221 samples. Thermogravimetric analysis was undertaken 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/af4735e3-b5ba-4e0b-8a41-503eeff89a82
title: Zinc tolerance measurements for Silene uniflora populations in the UK and Ireland, 2021

description: The dataset contains: 
(i) estimates of zinc tolerance for 50 populations of Silene uniflora in the UK and Ireland generated between 03/2021 and 09/2021. The data were collected using cuttings from wild collected specimens. Root growth of cuttings in zinc rich media was assessed using deep water culture experiments. The data set contains the zinc tolerance (mean and standard deviations of root growth scores) and the number of cuttings assessed for each population;
(ii) GPS positions describing the locations of 56 populations of Silene uniflora in the UK and Ireland which were observed between 2018 and 2021. Basic habitat type (montane, serpentine, mine, coastal) information is also included.

The work was supported by the Natural Environment Research Council NE/R001081/1.
description: The data were collected using cuttings from wild collected specimens which had been acclimatised in common conditions. Cuttings were propagated and acclimatised to standard deep water culture conditions before root staining and transfer to high zinc media. Root growth for each cutting was scored after 48 hours in zinc rich media. For each population, the zinc tolerance was estimated as the mean root growth score. Location observations were generated during field work between 02/2018 and 09/2021. Sites which potentially had been colonised by Silene uniflora were identified from Botanical Society of the British Isles records, existing literature and communication with county recorders. Sites were visited and the approximate geographic extent of the populations was recorded by GPS based on the location of observed specimens.
DOI: 10.5285/6bc0ccb4-63c8-4121-bc4b-3c479877cff9
title: Countryside Survey 1998 mapped estimates of linear feature lengths in Great Britain

description: This dataset consists of stock (length) data for linear features across Great Britain in 1998 in a vector format. The data are national estimates generated by analysing the sample data from 569 1km squares surveyed for the Countryside Survey long term monitoring project, then scaling up to a national level. The data are presented as mean lengths per 1km square for seven different feature categories within 45 different land class types, based on the ITE Land Classification. The Countryside Survey is a unique study or 'audit' of the natural resources of the UK's countryside, carried out by the Centre for Ecology & Hydrology. The sample sites are chosen from a stratified random sample, based on a 15 by 15 km grid of GB. Surveys have been carried out in 1978, 1984, 1990, 1998 and 2007 with repeated visits to the majority of squares. The countryside is sampled and surveyed using rigorous scientific methods, allowing us to compare new results with those from previous surveys. In this way we can detect the gradual and subtle changes that occur in the UK's countryside over time. In addition to linear features, habitat areas, species plot, soil plot, freshwater habitat and satellite map data are also produced by Countryside Survey.
description: The data were recorded onto paper field sheets in the summers of 1998 and 1999 by surveyors. Data were recorded from 569 1km squares sited across Britain, selected by random stratified sample. The boundary lines were digitized in 1998-2000. The digitized data were used to generate national estimates of the stock of linear features for Great Britain using the standard Countryside Survey methodology (refer to the online documentation). Estimates are presented by ITE Land Class (2007 version), as mean lengths per 1km square.
DOI: 10.5285/6e18121c-2184-49df-a852-f3227c28d82f
title: Above-ground carbon density derived from LiDAR data over oil palm plantations in Malaysian Borneo, 2014 

description: This data set provides above-ground carbon density derived from LiDAR data over oil palm plantations in the Stability of Altered Forest Ecosystems (SAFE) project site located in Sabah, Malaysian Borneo in 2014.  This includes the number of trees in plots and the average forest canopy per hectare at different heights.  Data were collected during a project which was included in the NERC Human-modified tropical forest (HMTF) Programme.
description: The work was carried out in the oil palm plantations within the Stability of Altered Forest Ecosystem (SAFE) Project, located within lowland dipterocarp forest regions of East Sabah in Malaysian Borneo.  Airborne LiDAR data were acquired on 5 November 2014 using a Leica LiDAR50-II flown at 1850 m altitude on a Dornier 228-201 travelling at 135 knots. The LiDAR sensor emitted pulses at 83.1 Hz with a field of view of 12.0°, and a footprint of about 40 cm diameter. The average pulse density was 7.3/m2. The Leica LiDAR50-II sensor records full waveform LiDAR, but for the purposes of this study the data were discretised, with up to four returns recorded per pulse.  The LiDAR data were pre-processed by NERC's Data Analysis Node and delivered in standard LAS format. All further processing was undertaken using LAStools (Rapidlasso GmbH, LAStools). Points were classified as ground and non-ground, and a digital elevation model (DEM) was fitted to the ground returns, producing a raster of 1 m resolution. The DEM elevations were subtracted from elevations of all non-ground returns to produce a normalised point cloud, and a canopy height model (CHM) was constructed from this on a 0.5 m raster by averaging the first returns. Finally, holes in the raster were filled by averaging neighbouring cells.  See supporting documentation for further information.
DOI: 10.5285/d26ea56a-a692-427c-8f5a-a9bb6eb7da6b
title: Radionuclide biological half-lives for farm animals

description: Data comprise a compilation of quality-controlled biological half-life values (and associated information) from a literature review for animals (mainly farm livestock) which contribute to the human food chain. The dataset contains almost 650 entries for 12 animal types (cattle, sheep, goats, deer, geese, hens, horses, pigs, rabbits, camels, ducks and red grouse) of importance to the human food chain for 32 elements relevant to radiological protection. Entries include values for milk, muscle (meat), eggs, whole body, carcass and various tissues (e.g. liver and kidney); the number of entries available for each element/food-chain product combination is highly variable. The dataset also contains values for other sample types (e.g. urine, faeces etc.) that are not associated with the human food but are presented as the data appeared in the same source reference as those values for human food chain products and they may be useful for modelling purposes. All the source references consulted during the review are provided. The study was conducted as part of the CONFIDENCE project which is part of the CONCERT EJP, which receives funding from the European Union’s Horizon 2020 Research and Innovation Programme under grant agreement No 662287.
description: Prior to beginning the review, a recording sheet (in Microsoft Excel), was designed to allow easy collation of the half-life values (and associated information) into the final dataset. Each source reference was consulted and the data quality-controlled prior to inclusion into the dataset; subsequently the majority of the entries have been validated by somebody other than the person making the initial entry.
Care should be taken when summarising the biological half-life values presented here. This is because source references often report differing numbers of components of loss (e.g. for Cs in milk between one and five loss components are reported by different authors) which means it is not possible to derive means and associated probability distribution functions for a given component (i.e. a degree of interpretation will be required when trying to derive ‘best estimate’ values).
DOI: 10.5285/fecff8c2-983e-4883-a0f8-ac65deba02cf
title: Measurements of tree motion in the wind collated from multiple studies undertaken in the UK, Puerto Rico and Australia between 1987-2015

description: This dataset contains high resolution measurements of tree motion in response to wind at six sites. The data was collected using sensors mounted directly onto the tree trunk.

The sites are: Rivox, Kershope, Kyloe and Clocaenog in the UK. Guanica in Puerto Rico and six open-grown trees from Australia.
description: The data in Rivox were collected using displacement sensors, all other sites used strain gauges. In the four UK sites, wind data were collected at 10 Hz using a 3D sonic anemometer on a tower at canopy height. Wind data for the trees in Australia were collected using a cup anemometer. No wind data was collected in Guanica.

No pre-processing, filtering or quality control has been conducted on these data. They have only been downloaded from the data loggers and merged into continuous time-series.

The data were used to estimate wind damage risk and no additional processing was needed.
DOI: 10.5285/a5a862da-8db2-4881-9046-610c8573b499
title: Amazon tree ring isotope records of Macrolobium acaciifolium and Cedrela odorata

description: The data consist of tree ring oxygen (δ18Otr) and carbon (δ13Ctr) isotope data of Macrolobium acaciifolium and Cedrela odorata from five sites in the Amazon basin, including Pacaya (Peru) and Maranon (Peru), Leticia (Colombia), Manuripi (Bolivia) and Riberalta (Bolivia).

All sample preparation (i.e., cutting ring sections, cellulose extraction, weighing and packing) was done at the University of Leeds, and all isotope ratio measurements were done at Stable Isotope Laboratory at the University of Leicester.
description: All sample preparation (i.e., cutting ring sections, cellulose extraction, weighing and packing) was done at the University of Leeds, and all isotope ratio measurements were done at Stable Isotope Laboratory at the University of Leicester. Cellulose was extracted directly from wood cross-sectional slices following the procedure of Kagawa et al. (2015): cross-sectional slices of 1-4mm thickness and 6-8 cm length were cut from the core samples with a circular diamond saw blade and packed in TEFLON perforated sheets. Cellulose was extracted from the raw wood material following the chemical procedure of Wieloch et al. (2011).
DOI: 10.5285/ade59134-8837-4326-b2b4-182f64143b08
title: Simulated soil moisture data at different soil depths from lysimeter experiments in Ningbo, China [2017]

description: This data pertains to simulations carried for 90 days for a 100 cm deep lysimeter planted with rice plant in Ningbo, China. The diameter of the lysimeter was 80 cm. The boundary conditions for the simulations were obtained from the in-situ instruments. Soil moisture and metal concentration in the root zone were simulated and recorded at regular intervals.
description: The model used for the simulation is a finite element model Hydrus Simunek et al., 2003 and Simunek et al. 2005 that numerically resolves Richard’s equation for spatiotemporal variation of soil moisture in the vadose zone during the growing season. The entire soil column of the lysimeter (100 cm) was discretized with 101 nodes for conducting high resolution simulation and examine the spatiotemporal variation of the soil moisture through the growing season. The hydraulic parameters (residual soil water content, saturated soil water content and parameter α for soil water retention) required by the model were calibrated to match the observed soil moisture data.
DOI: 10.5285/b902e25a-ffec-446f-a270-03cc2501fe1d
title: Aboveground plant biomass and soil respiration for seven European shrublands under drought and warming manipulations (1998-2012)

description: The data consists of annual measurements of standing aboveground plant biomass, annual aboveground net primary productivity and annual soil respiration between 1998 and 2012. Data were collected from seven European shrublands that were subject to the climate manipulations drought and warming. Sites were located in the United Kingdom (UK), the Netherlands (NL), Denmark ( two sites, DK-B and DK-M), Hungary (HU), Spain (SP) and Italy (IT). All field sites consisted of untreated control plots, plots where the plant canopy air is artificially warmed during night time hours, and plots where rainfall is excluded from the plots at least during the plants growing season.

Standing aboveground plant biomass (grams biomass per square metre) was measured in two undisturbed areas within the plots using the pin-point method (UK, DK-M, DK-B), or along a transect (IT, SP, HU, NL). Aboveground net primary productivity was calculated from measurements of standing aboveground plant biomass estimates and litterfall measurements. Soil respiration was measured in pre-installed opaque soil collars bi-weekly, monthly, or in measurement campaigns (SP only). 

The datasets provided are the basis for the data analysis presented in Reinsch et al. (2017) Shrubland primary production and soil respiration diverge along European climate gradient. Scientific Reports 7:43952 https://doi.org/10.1038/srep43952
description: Standing biomass was measured using the non-destructive pin-point method to assess aboveground biomass. Measurements were conducted at the state of peak biomass specific for each site. Litterfall was measured annually using litterfall traps. Litter collected in the traps was dried and the weight was measured. Aboveground biomass productivity was estimated as the difference between the measured standing biomass in year x minus the standing biomass measured the previous year. Soil respiration was measured bi-weekly or monthly, or in campaigns (Spain only). It was measured on permanently installed soil collars in treatment plots.
The Gaussen Index of Aridity (an index that combines information on rainfall and temperature) was calculated using mean annual precipitation, mean annual temperature. The reduction in precipitation and increase in temperature for each site was used to calculate the Gaussen Index for the climate treatments for each site.

Data of standing biomass and soil respiration was provided by the site responsible. Data from all sites were collated into one data file for data analysis. A summary data set was combined with information on the Gaussen Index of Aridity 
Data were then exported from these Excel spreadsheet to .csv files for ingestion into the EIDC.
DOI: 10.5285/13f878dc-ef87-45d5-be8c-5733c88c30e9
title: Phenotypic and environmental data for Lake Ring, Denmark, Daphnia magna population, 1955-2010

description: This dataset contains fitness-linked life history traits, environmental data, and protein and gene expression data for Daphnia magna.
 
Life history data were measured in common garden experiments. For each clone of the same genotype across all experiments, size at maturity (distance between the head and the base of the tail spine), age at maturity (first time eggs were observed in the brood chamber), fecundity (total number of offspring released summing first and second brood), and mortality were measured. Critical thermal maximum (CTmax) was measured on the experimental animals.
 
Environmental data consisted of Secchi disk depth (water transparency) ; total phosphorous; and total nitrogen for the years 1971–1999; a record of pesticides 1955–2010; temperature records over the past century 80 km from Lake Ring.
 
Organic and carbonate contents of the sediment was estimated using the loss on ignition (LOI) method.
 
Hb protein data consisted of constitutive Hb protein crude content animals reared in normoxic (saturated oxygen level) conditions at two experimental temperatures, 20 and 30°C.
 
Heat shock protein expression was measured in four heat shock proteins (HSP20, HSP60, HSP70 and HSP90). Total RNA, qPCR, mean CT (cycle threshold) value per sample and per protein were collected.
description: Lineages (genotypes) of Daphnia were resurrected (revived) from biological archives of Lake Ring, a shallow mixed lake in Denmark (550 57´ 51.83´´ N, 9035´46.87´´E) with a known history of anthropogenic impact. The process by which lineages were obtained is as follows:
1.	Sediment is sampled using a piston corer of approximately 1.5 m in length with an internal tube diameter of 14 cm
2.	The sediment core is separated in incremental layers of 1 cm or less using a flat metal surface
3.	Each sediment layer is collected in a separate sampling bag and weighted using a precision scale
4.	Each layer of sediment is sieved and dormant Daphnia isolated after visual inspection
5.	Under a stereo microscope, each dormant Daphnia encapsulated in an ephippium is opened using microdissection forceps to expose dormant embryos to light
6.	Each dormant embryos develops in a fully functional adult from which an isoclonal lineage is established and maintained in the laboratory indefinitely.
From a total of 923 dormant Daphnia, 262 lineages were successfully hatched.  From these, a total of 40 randomly chosen lineages across the sediment core were used in the experiments and fitness-linked life-history traits measured.
DOI: 10.5285/5ffbc89e-ebed-4fdc-9563-bad42f50e8ce
title: Coastal Biodiversity and Ecosystem Service Sustainability (CBESS) surface sediment water content in saltmarsh and mudflat habitats

description: The dataset details surface sediment water content across six intertidal sites in the winter and summer of 2013. Three of the sites were in Morecambe Bay, North West England and three of the sites were in Essex, South East England. Each of these sites consisted of a saltmarsh area and adjacent mudflat area, with twenty two sampling quadrats placed on each area. Five replicate sediment samples were taken at each quadrat and then freeze dried to give average percentage water content. 

This data was collected as part of Coastal Biodiversity and Ecosystem Service Sustainability (CBESS): NE/J015644/1. The project was funded with support from the Biodiversity and Ecosystem Service Sustainability (BESS) programme. BESS is a six-year programme (2011-2017) funded by the UK Natural Environment Research Council (NERC) and the Biotechnology and Biological Sciences Research Council (BBSRC) as part of the UK's Living with Environmental Change (LWEC) programme.

description: Sediment water content was determined through the collection of contact cores. Contact cores use liquid nitrogen to freeze the top 2mm of the sediment surface, excess unfrozen sediment is removed and the sample core is stored below -80 degree centigrade. The sample is weighed to determine wet weight and freeze dried to remove all water. The sample is re-weighed to give dry weight; the difference between the wet and dry weights gives the water content as a percentage. The location of the sample sites was determined by randomly allocated quadrats. Twenty two 1 x 1 m quadrats were randomly allocated to each mudflat and saltmarsh site using R (R Development Core Team, 2014) to specify four different spatial scales (A = 1 quadrat only, B = 3 quadrats at 1 m to 10 m apart, C = 6 quadrats at 10 m to 100 m apart, D = 12 quadrats at 100 m to 1000 m or site maximum).