cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5285/a35d0ded-b422-4af3-8f74-e70249fc9788
title: Baseline soil pH data from Sourhope field experiment site, Scotland, 1999-2002 [NERC Soil Biodiversity Programme]

description: This data set details soil pH values and soil moisture values from experimental plots at a field site at Sourhope, Scotland, between 1998 and 2002.  Data were collected as part of the NERC Soil Biodiversity Thematic Programme, which was established in 1999 and was centred upon the intensive study of a large field experiment located at the Macaulay Land Use Research Institute (now the James Hutton Institute) farm at Sourhope in the Scottish Borders (Grid reference: NT8545019630). During the experiment, the site was monitored to assess changes in above-ground biomass production (productivity), species composition and relative abundance (diversity). 
description: On separate sampling occasions (Mar. and Sep. 1999, Mar. 2000, Mar. and Oct. 2001, Mar. 2002) soil cores were taken from the centre area of each of the experimental plot for baseline measurements. pH values were determined for each sample, block and main-plot. Soil moisture content values were also calculated for the Sep. 1999 samples.  pH was sampled before the experiment began in 1998.
In addition, two sets of samples were taken in Apr. 2000 and July 2003 from each of the general sampling sub-plots (S T U V) from within all the experimental plot types except the control 2 plots, and used to assess the variation in pH across the site.  Data were collected by staff employed by the Macaulay Land Use Research Institute (MLURI) at the Sourhope experimental site before being transferred to the programme data manager at the Centre for Ecology & Hydrology.
DOI: 10.5285/0a9900f2-8556-4487-bc13-9c2fdc05082c
title: Gridded estimates of Ellenberg N, R, F, and L indicators for Great Britain, 1990 and 2015-2019

description: This information product contains gridded estimates of Ellenberg vegetation indicator scores for four different indicators: fertility (N); pH/reactivity (R); light availability (L) and moisture (F) at 1km2 resolution. Both cover-weighted (cwt) and non-cover weighted (site) Ellenberg indicators are estimated. Estimates are made for two different time periods, 1990 and 2015-2019 and the change between the two time periods is also presented. 

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: Estimates were derived using three different vegetation monitoring datasets: Countryside Survey (CS); National Plant Monitoring Scheme (NPMS) and Natural England’s Long Term Monitoring Network (LTMN). All three datasets contributed to the 2015-2019 estimates but only CS was available historically to create 1990 estimates. Predictions from generalised additive mixed models including climate and deposition variables were used to create gridded estimates at 1km2 resolution. Change was calculated as the difference between the two time periods. Uncertainty estimates are provided for alongside all estimates.
DOI: 10.5285/8dde3529-1cf7-4b0f-907d-a1631f38afd7
title: Genotype-phenotype association for mate choice in progeny of Drosophila simulans backcross

description: The data resource contains Drosophila simulans backcross female mate choice (phenotype) aligned with whole-genome genotypes of 784 female backcross progeny. The data were generated in a laboratory at Stony Brook University, New York and each test was conducted in 28.5 x 95mm plastic vials. Phenotype data was collected in 2015 and the final analysis was completed in 2021. Illumina libraries were sequenced at University of Oregon G3 Genomics Center, and the multiplexed shotgun genotyping (MSG) software was run at Janelia Research Campus, Virginia. The experiments were conducted to align the genotype of females with behavioural phenotype, female preference. Three test females were allowed to choose from three males of either species. ‘Choice’ was determined by copulation, and the species of ‘chosen’ male was recorded before gDNA was extracted from the female.

Standard molecular biology was used to generate Illumina libraries from individual backcross females for sequencing. Deniz Erezyilmaz was responsible for data collection and interpretation. Those genomes with incomplete or inconsistent genomes due to sparse reads/coverage were eliminated from the analysis.

The research was funded through NERC grant NE/S010351/1. Investigating the dual role of mate choice genes in behavioural isolation and hybridization.
description: The Drosophila simulans backcross genotypes were obtained by Multiplexed Shotgun Genotyping (Andolfatto et al, 2011), and the files were thinned using David Stern’s (Janelia Research Campus) script, pull_thin (Github) were obtained by two-choice assay, females choosing between D. simulans and D. sechellia males. 

Standard molecular biology was used to generate Illumina libraries from individual backcross females for sequencing., as described in Andolfatto, P., Davison, D., Erezyilmaz, D., Hu, T.T., Mast, J., Sunayama-Morita, T., & Stern, D.L. (2011). Multiplexed shotgun genotyping for rapid and efficient genetic mapping. In Genome Research (Vol. 21, Issue 4, pp. 610–617). Cold Spring Harbor Laboratory.  https://doi.org/10.1101/gr.115402.110
DOI: 10.5285/acbb0f9c-f2a5-4cbd-97c3-84e786f2e479
title: Countryside Survey 1998 estimates of Broad Habitat areas in Great Britain

description: This dataset consists of stock (area) data for Broad Habitats across Great Britain in 1998. The data are national estimates generated by analysing the sample data from 569 1km squares and scaling up to a national level. The data are summarized as habitat area per Land Class (areas of similar environmental characteristics). The sample sites are chosen from a stratified random sample, based on a 15 by 15 km grid of GB and using the 'ITE Land Classification' as a method of stratification. The data were collected as part of Countryside Survey, a unique study or 'audit' of the natural resources of the UK's countryside. The Survey has been carried out at regular intervals since 1978. 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. Surveys have been carried out in 1978, 1984, 1990, 1998 and 2007 with repeated visits to the majority of squares. In addition to habitat areas, vegetation species data, soil data, linear habitat data, and freshwater habitat data are also gathered by Countryside Survey.
description: The data were recorded onto paper field sheets in the summer of 1998 by surveyors (a few sites were surveyed in 1999). Data were recorded from 569 1km squares sited across Britain, selected by random stratified sample. The areas of UK Biodiversity Action Plan (UK BAP) Broad Habitats were digitized in 1999/2000. The digitized data were used to generate national estimates of the stock of Broad Habitats for Great Britain using the standard Countryside Survey methodology (refer to the online documentation). Estimates are presented by ITE Land Class (2007 version).
DOI: 10.5285/c31c0b2a-ee5b-479f-84c3-ff1b0bfc6d84
title: Survival data of human pathogens on plastics during transfer downstream in a simulated freshwater-marine continuum

description: This resource holds survival data of human pathogens bound to microplastics during transfer through the freshwater-marine continuum. The survival of Escherichia coli, Enterococcus faecalis and Pseudomonas aeruginosa colonising polyethylene or glass particles was quantified in mesocosm incubation experiments designed to simulate, (1) the direct release of microplastics from wastewater treatment plants (WWTPs) into freshwater and seawater environments; and (2) the movement of microplastics downstream following discharge from the WWTP through the river-estuary-marine-beach continuum. Background bacterial concentrations and crystal violet were also measured. 
description: Selective media were used to quantify the concentrations of the target bacteria colonising the different particles throughout the experiment. Crystal violet was used to determine the amount of biofilm colonising the different particles. Colony forming (CFU) counts were normalised by transforming to log10 CFU per 40 particles. 

Salinity, electrical conductivity (EC) and turbidity were measured with, a salinity refractometer (RGBS), HI2550 EC meter and HI88703 turbidimeter respectively (Hanna Instruments, UK).
DOI: 10.5285/1cebd79c-02e7-475a-a1da-1f26a963d41e
title: Natural wetland methane and permafrost thaw feedback modelling with JULES-IMOGEN (1850-2100)

description: These data contain 408 instances of annual model output from JULES/IMOGEN simulations, covering the period between 1850-2100.
Each simulation (which corresponds to one netcdf file) provides annual average of carbon stocks of the land, atmosphere and ocean store required to calculate the anthropogenic fossil fuel emissions as the residual of the yearly changes. Also included are the global warming variables, fractional land-cover, natural wetland extent and methane (CH4) flux and the soil temperature and moisture content for additional analysis.

The spatial coverage is global with spatial resolution of the data is 2.5 degrees latitude, 3.75 degrees longitude. 

This dataset is the model output that was used in Comyn-Platt et al (2018) [
Comyn-Platt, E. et al. (2018). Carbon budgets for 1.5 and 2C targets lowered by natural wetland and permafrost feedbacks. Nature Geoscience. https://doi.org/10.1038/s41561-018-0174-9]
description: These data contain 12 sets (4 model configurations x 3 temperature pathways) of annual model output from JULES driven by 34 different GCM climate patterns as described in the IMOGEN system. 

The four model configurations included are:
- 'BLco' - Baseline, or control, configuration without methane feedback.
- 'CH4_lowQ10' - CH4 feedback configuration with a low temperature sensitivity methanogenesis scheme.
- 'CH4_poorFEN' - CH4 feedback configuration with a methanogenesis temperature sensitivity representative of 'poor fen' type wetlands.
- 'CH4_richFEN' - CH4 feedback configuration with a methanogenesis temperature sensitivity representative of 'rich fen' type wetlands.

The three temperature scenarios included are:
- '2deg' - Stabilisation at 2 deg C by 2100 from below
- '1p5deg' - Stabilisation at 1.5 deg C by 2100 from below
- '1p5degOS' - Stabilisation at 1.5 deg C by 2100 following an overshoot to 1.75 deg C

For full details of the methods used please refer to  Comyn-Platt et al. (2018) https://doi.org/10.1038/s41561-018-0174-9
DOI: 10.5285/d329ca18-c3d8-49f0-b2fd-5243d76dc650
title: Water chemistry of Welsh upland rivers (2012-2013)

description: These data consist of stream water chemistry for selected Welsh upland rivers. The sampling sites were located in sixty one small and medium catchments. Catchments were chosen from the Welsh Acid Water Surveys (WAWS) program (41 sites) and the Wye catchment (20 sites). Results for pH, alkalinity, conductivity and major cation and anion measurements are presented for the WAWS catchments. Results for pH, alkalinity, conductivity and major anion measurements are presented for the Wye catchment. Samples from the Wye catchment were collected in May 2012. Samples from the WAWS catchments were taken during the summer and autumn of 2012 and spring and summer of 2013.

The data were collected to characterise water chemistry variation along a gradient of aquatic biodiversity associated with different environmental settings for example land-use intensify and recovery from acidification. Dr Isabelle Durance was responsible for organising the surveys, Dr Hugh Feeley was in charge of collecting and preserving the water samples. Analysis of the water samples was carried out at the Forest Research Laboratories. The work was carried out under Diversity in Upland Rivers for Ecosystem Service Sustainability (DURESS) project (Grant reference NERC NE/J014818/1). DURESS was a project funded by the Natural Environment Research Council (NERC) Biodiversity and Ecosystem Service Sustainability (BESS) programme.
description: Filtered and unfiltered water samples were collected in situ using standardised procedures. Samples were then sent to the Forest Research Laboratory to be analysed for pH, alkalinity, conductivity, major anions and cations. Results were entered into an Excel spreadsheet. Data were exported as comma separated files for ingestion into the Environmental Information Data Centre (EIDC)
DOI: 10.5285/085ec3ff-110d-4dbf-96da-7418ab9a7c5a
title: Phenotypic traits of laboratory-housed field crickets (Gryllus bimaculatus) bred from parents with a range of ages

description: The data comprises records of phenotypic traits of outbred Gryllus bimaculatus that were bred in a laboratory. Inbreeding was minimized by avoiding crossing family lines. Traits that were measured include adult body mass, development time, and lifespan. The data were collected in 2023 by researchers from the University of Glasgow to investigate the effects of parental age and temperature conditions on offspring life-history. We chose this species because we have complementary field projects on field crickets and they are easily maintained in a lab. 


description: Crickets were housed in individual boxes (approximately 18x10x7cm) from hatching . All individuals were kept at 28 degrees Celsius. Development time and lifespan data were obtained by weekly survival and adult emergence checks. Body mass was recorded to the nearest microgram using a calibrated balance. Weakly checks were done to record the date of adult emergence or death. Individuals had access to food (dried grass pellets - rabbit food from Science Selective) and water ad libitum. The data were entered in an Access data base and subsequently exported as csv file.
DOI: 10.5285/58b66cdf-451c-42e7-8153-c24ec30631fd
title: Litterfall herbivory in fertilised plots in the Central Amazon, 2017-2019

description: The data consists of leaf traits and nutrients from litterfall in a fertilised old-growth forest in the Central Amazon. Data was collected in a full factorial nutrient addition experiment (nitrogen, phosphorus, and cation treatments). The dataset includes realized leaf area, and Leaf Mass Area (LMA).

The field work was completed in August of 2017, 2018 and 2019.

The study was funded by NERC, BDFFP (logistical support), and the Brazilian government (students' scholarship).
description: The study was carried at the AFEX project (Amazon fertilization Experiment) area at the Biological Dynamics of Forest Fragments Project (BDFFP/ INPA) located approximately 80 km north of Manaus/Amazonas/Brazil (02° 25' 00'' S; 59° 43' 00' W). 

The analysis was made in August of 2017, 2018, and 2019 (peak of litterfall production). 

A sample of leaves from all litter traps per plot was analysed. To obtain leaf area in mm², leaf images were analysed with the image processing software Image and LMA(g/m²) was calculated dividing leaf biomass (g) by leaf area.
DOI: 10.5285/79ae89dd-a597-4dc9-9cc9-bb82cbf33559
title: Surface temperature, surface oxygen, water clarity, water chemistry and phytoplankton chlorophyll a data from Windermere South Basin, 2019-2020

description: This is part of an ongoing long-term monitoring dataset of surface temperature, surface oxygen, water clarity, water chemistry and phytoplankton chlorophyll a from fortnightly sampling at the South Basin of Windermere in Cumbria, England that began in 1945 for some variables. The data have been collected by the UK Centre for Ecology & Hydrology (UKCEH). The data available to download comprise surface temperature (TEMP) in degree Celsius, surface oxygen saturation (OXYG) in % air-saturation, Secchi depth (SECC) in metres, alkalinity (ALKA) in µg per litre as CaCO3 and pH. Ammonium (NH4N), nitrate (NO3N), soluble reactive phosphate (PO4P), total phosphorus (TOTP), dissolved reactive silicon expressed as SiO2 (SIO2) and phytoplankton chlorophyll a (TOCA) are all given in µg per litre. Water samples are based on a sample integrated from 0 to 7m. All data are from January 2019 until the end of 2020.
description: Please note that the data presented here are raw data that have not yet been quality controlled and calibrated. However, data has been double entered and checked visually. Missing data are due to weather conditions, covid-19 restrictions or staff shortage.
Measurements are made from a boat at a marked location (buoy) at the deepest part of the lake.
DOI: 10.5285/72c05810-eb66-49e1-9107-dec8cde3b07e
title: Radionuclide distribution down soil profiles in the Chernobyl Exclusion Zone, 2020

description: A large area of the Chernobyl Exclusion Zone was affected by severe wildfires in April 2020. This dataset presents the results of a study conducted following the fire in September/October 2020 to measure the migration of 137Cs and 90Sr in soils collected from three study sites located within forested areas on the left bank of the Pripyat River within the Chornobyl Exclusion Zone.

Data comprise activity concentrations of 90Sr and 137Cs measured in soil samples. Soils were sampled layer-by-layer (0-10 cm, 10-20 cm, 20-30 cm, 40-50 cm, 50-60 cm, 60-70 cm, 70-80 cm, 80-90 cm, and 90-100 cm) from three locations at each of the three study sites. 
At each of the three study sites, circular plots were established on September 21st 2020 and soil samples collected; the circular plots were of different sizes dependent upon tree density. On October 8th 2020 a tripod was installed at the centre of each study site; the plot coordinates were noted and information on the trees present recorded (diameter, height and condition (dead or alive)).

The dataset comprises two files. These files contain information on site and sampling locations, date of sampling, Cs-137 and Sr-90 activity concentration ((Bq kg-1) and analysis uncertainty (2-sigma)) in soil samples taken at 10cm intervals to a depth of 1 m, tree condition after wildfire (measured October 8th 2020); tree diameter (measured at a height of 1.3 m above ground level) and tree height (m).

description: At three study sites, circular plots were established and soil samples collected from three sampling points at each of the three sites. At each sampling point forest litter/ash and layer-by-layer soil samples were taken. The dry mass of each soil layer from one sampling point at each site was determined. The plot coordinates were noted and information on the trees present was recorded. 

For all forest litter/ash and soil samples 137Cs activity concentrations were determined using a low-background gamma spectrometer and 90Sr activity concentrations were determined using a non-destructive, rapid and simple beta-spectrometric method. Quantification of the 90Sr activity concentration was obtained by calibrating the spectrometer with certified mono-radionuclide standards of 137Cs, 90Sr and 40K).

Data were supplied to UKCEH as MSExcel files to be prepared for publication. All data were supplied to EIDC as csv files.
DOI: 10.5285/d83a0f9e-00c9-4d2d-9d0a-e92a16dcb334
title: Countryside Survey mapped estimates of Broad Habitat area change in Great Britain between 1998 and 2007

description: This dataset consists of change data for areas of Broad Habitats across Great Britain between 1998 and 2007. The data are national estimates generated by analysing the sample data from up to 591 1km squares and scaling up to a national level. The data are summarized as percentage increase or decrease in habitat area per Land Class (areas of similar environmental characteristics) and are in a vector format. The sample sites are chosen from a stratified random sample, based on a 15 by 15 km grid of GB and using the 'ITE Land Classification' as a method of stratification. The data were collected as part of Countryside Survey, a unique study or 'audit' of the natural resources of the UK's countryside. The Survey has been carried out at regular intervals since 1978 by the Centre for Ecology & Hydrology. 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. Surveys have been carried out in 1978, 1984, 1990, 1998 and 2007 with repeated visits to the majority of squares. In addition to habitat areas, vegetation species data, soil data, linear habitat data, and freshwater habitat data are also gathered by Countryside Survey.
description: The data were recorded onto paper field sheets in the summers of 1998 and 1999 by surveyors. In the summer of 2007, the data were recorded using electronic data capture devices. Data were recorded from 569 1km squares (1998/99) and 591 1km squares (2007) sited across Britain, selected by random stratified sample. The areas of UK Biodiversity Action Plan (UK BAP) Broad Habitats from 1998/99 were digitized in 2000. The digitized data were used to generate national estimates of the change in Broad Habitats for Great Britain using the standard Countryside Survey methodology (refer to the online documentation). Estimates are presented as percentage increases/decreases by ITE Land Class (2007 version).
DOI: 10.5285/255320dd-38ae-4a07-93bb-4f90439309f8
title: Alpine grassland soil microbial and biogeochemical data from a snow manipulation experiment in Hohe Mut, Austria, 2017

description: Data comprise soil microbial and biogeochemical data collected during a snow manipulation experiment on the summit of Hohe Mut (2650 m) near Obergurgl, in the Austrian Alps (lat. 46.84862, long. 11.02957). 

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 part of the NERC project NE/N009452/1. 
description: Soil was sampled at six time-points from late winter (28th march 2017) to early summer (8th July 2017) across 15 experimental plots. Snow had been removed from five plots, added to five other plots and remained untouched on five plots (controls). Soil cores were taken (Ø = 2 cm, depth = 7 cm, where possible, although some cores were shallower when soil was frozen during winter) using a steel corer from five randomly chosen locations in each plot. Soil cores from the same plot were pooled and homogenised, any vegetation or litter was separated and discarded. Soil subsamples were immediately lysed in the field and stored at -80 deg C prior to molecular analyses. The remaining soil samples were sieved (4 mm) and stored at 4oC prior to biogeochemical analyses. See documentation accompanying the data for further details.