cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5285/1256d475-f321-4a9b-b4ed-927e5b825d3f
title: Sunflower seed predation rates in Biodiversity and Ecosystem Function in Tropical Agriculture (BEFTA) plots, Kandista and Ujun Tanjung estates, Indonesia

description: Data comprise sunflower seed predation rates (i.e. number of seeds remaining) after 24 hours under different treatments in eighteen experimental plots plots established in 2013 as part of the Biodiversity and Ecosystem Function in Tropical Agriculture (BEFTA) programme. Eighteen plots were examined across three estates - plots in Ujung Tanjung and Kandista estates were planted in 1987 to 1992 and are mature or over-mature oil palm, while Libo plots were replanted in 2014. Plots were organised in triplets and in Ujung Tanjung and Kandista, for each triplet one plot was assigned to each of three vegetation treatments: Reduced vegetation cover, normal vegetation management and enhanced vegetation cover.

The project 'Managing tropical agricultural ecosystems for resistance and recovery of ecosystem processes' was funded by the Natural Environment Research Council under NE/P00458X/1.
description: Granivory was measured once in mature oil palm in 2014 and five times in both mature and replanted stands during 2016-2017. The basic unit for the granivory test was ten shelled sunflower seeds placed on a paper disc of approx. 15 cm diameter, covered by a polystyrene disposable plate held approx. 10cm above the soil surface with kebab sticks in order to keep the rain off. For each replicate four treatments were applied: two of the paper discs had 1cm of thick chassis grease applied round the edge and two were in cages such that there were cage + grease, cage only, grease only, and open. The traps were metal grid boxes approximately 35 x 20 x 14 cm, with no holes wider than 1cm. One test (four treatments) was carried out at each of the three sampling positions in the plot. Samples were placed out in the field for approximately 24 hours before being assessed. 
Basic data checks were carried out (checks for impossible values, such as 11 of 10 seeds remaining). We have error-checked 50% of the data entry against the original field sheets, finding an acceptable error rate of <1% and correcting errors when we encountered them. All changes were recorded and that information remains with the dataset. 
See Luke et al. (2019, doi: 10.3389/ffgc.2019.00075) for further details of the experimental set-up.
DOI: 10.5285/69f62656-567c-42dd-bb65-8f0cbbeb1693
title: Trace element data from rivers [LOIS]

description: Discrete data for trace elements for both the dissolved and acid available fractions for thirteen core sites in the Humber catchment over the period 1993 to 1997 and for three sites from the Tweed catchment over the period 1994 to 1997. Part of the Land Ocean Interaction Study project (LOIS). Trace elements measured were: Aluminium (Al), Antimony (Sb), Arsenic (As), Barium (Ba), Beryllium (Be), Boron (B), Cadmium (Cd), Cerium (Ce), Chromium (Cr), Cobalt (Co), Copper (Cu), Gadolinium (Gd), Iron (Fe), Lanthanum (La), Lead (Pb), Lithium (Li), Manganese (Mn), Molybdenum (Mo), Neodymium (Nd), Nickel (Ni), Rubidium (Rb), Samarium (Sm), Scandium (Sc), Strontium (Sr), Tin (Sn), Uranium (U), Yttrium (Y), Zinc (Zn). The Core sites were sampled at regular weekly intervals and more intermittently during high flows (on average an extra sampling once a month per site). The Swale sites were sampled during hydrological events and the Aire sites were sampled both weekly and during hydrological events. The majority of samples were obtained using a wide neck grab sampler. Those samples collected from the Aire during hydrological events were obtained using EPIC automatic samplers. Both dissolved and acid available trace element fractions were determined for all samples. The dissolved fraction was measured by filtering samples and acidifying the filtrates with concentrated aristar grade nitric acid (1%vv) on the same day of sampling. The acid available fraction was determined by acidifying an unfiltered sample as above and agitating for 24 hours, at room temperature, prior to filtration. Samples were then analysed by inductively coupled plasma optical emission spectrometry (ICP-OES: B, Ba, Fe, Mn, Sr) and mass spectrometry (ICP-MS: Al, As, Be, Cd, Ce, Co, Cr, Cu, Gd, La, Li, Mo, Nd, Ni, Pb, Rb, Sb, Sc, Sm, Sn, U, Y, Zn).
description: For the trace element determinations, quality control standards were included with the samples during analysis. These standards were checked weekly against international quality control references prepared by the United States Geological Survey National Water Quality Laboratory (SRM 1643c). The lowest quotable values were taken as five times the detection level and all variables were rounded to the nearest 0.1 ug/l apart from Aluminium, Beryllium, Boron, Copper, Iron, Lithium and Zinc which were rounded to the nearest 1 ug/l. A zip file of box-and-whisker plots for each determinand, showing the range of values (median, inter-quartile range, 1.5 * inter-quartile range, outliers) recorded at each site, is available to enable prospective users to understand data quality.
DOI: 10.5285/60dd0b8f-f0c3-4e30-841b-1c2067052974
title: A-Ci, photosynthetic capacity and dark respiration data along an elevation/temperature gradient in the Colombian Andes, 2019

description: This dataset includes key photosynthesis and respiration data collected from three common garden sites along an elevation/temperature gradient in the Colombian Andes. Raw A-Ci data, the Vcmax (carboxylation of RuBP by the enzyme Rubisco) and Jmax (the regeneration of RuBP by the electron transport chain) values estimated from this data, and Rdark (leaf dark respiration) values collected using spot measurements, are all available, along with variables such as leaf temperature (°C), relative humidity (%) and pressure values (kPa) returned by the LI-6800 portable photosynthesis system.  
description: The raw A-Ci data was collected using a LI-6800 portable photosynthesis system. Once clamped onto a leaf, conditions inside the cuvette were standardised to 29ᵒC, 65% relative humidity and 410ppm CO2; once stable at gs ≥0.05 mol m-2 s-1, net photosynthesis was measured sequentially at 8 different ambient CO2 concentrations (Ca; 410, 300, 175, 60, 410, 800, 1500, 2000) corresponding to different intercellular Ci concentrations. Light intensity was set to a pre-determined saturating photon flux density (PPFD) for each species, according to A-Q curves collected prior to the A-Ci curves.

Vcmax and Jmax values were estimated by inputting the raw A-Ci data into the 'plantecophys' package (Duursma, 2015) in the R environment (v4.2.1; R Core Team, 2022). Once these had been extracted, values were standardised to both 25°C and site growth temperature (Tg) using temperature response values derived from Kumarathunge et al. (2019) and the equation given in the supporting documentation. 

Rdark values were also standardised to 25°C and Tg using an exponential fixed Q10 equation (Tjoelker et al. 2001) and including the temperature-dependence of Q10; both equations are given in the supporting documentation.
DOI: 10.5285/ecb17680-da2e-49ae-b250-2d04a6a08d2a
title: Survival and performance of Speckled Wood butterflies in relation to microclimate

description: The datasets were collected during experiments undertaken to examine survival rates and larval performance of Speckled Wood butterflies (Pararge aegeria) in different habitats (grassland and woodland). The experiments were carried out between 2008 and 2010 by the University of York, at sites in Yorkshire, Great Britain.
description: The data were collected during an experiment carried out by the University of York, at sites in Yorkshire, Great Britain. For full details, refer to the online supporting information.
DOI: 10.5285/4921f306-5efa-4bf7-a15e-a157c2665889
title: Features detected by untargeted metabolomic analysis of paired cultures of four strains of Streptomyces bacteria isolated from a nature reserve in Minnesota, USA

description: This dataset contains features detected by untargeted metabolomics analysis 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 the mass-to-charge (m/z) and retention time of identified peaks, and their ion intensity in each sample. The relative abundance of these identified features was later compared between pairs of interacting strains to gain insight into changes in their metabolism. 

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. Noise removal, signal filtering and peak matching was performed in the open source mzMatch software. Pooled quality control samples were analysed at every 6th injection to assess for analytical drift over time. The sample injection sequence was randomised.
DOI: 10.5285/7e7d722c-bdd7-4900-a443-e26370d72438
title: Surface temperature, surface oxygen, water clarity, water chemistry and phytoplankton chlorophyll a data from Derwent Water, 2014 to 2018

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 by the UK Centre for Ecology & Hydrology (UKCEH) at Derwent Water in Cumbria, England. 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. Measurements are made from a boat at a marked location (buoy) at the deepest part of the lake. When it was not possible to visit the buoy, samples were taken from the shore, thus water samples were not integrated on these occasions, marked as Flag 2. All data are from January 2014 until the end of 2018. Unfortunately, due to funding shortages, the long-term monitoring of Derwent Water ended early 2019. 

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: Measurements are made from a boat at a marked location (buoy) at the deepest part of the lake. When it was not possible to visit the buoy, samples were taken from the shore. Water samples are based on a sample integrated from 0 to 5 m. Samples were analysed in UKCEH laboratories.
DOI: 10.5285/fb1e474d-456b-42a9-9a10-a02c35af10d2
title: Woodlands survey soil data 1971-2001

description: The dataset consists of pH, Loss on ignition (Soil organic matter) measurements and soil group information taken from soil samples from plots in 103 woodland sites surveyed across Great Britain in 1971 and again over the growing seasons of 2000, 2002 and 2003 (referred to as '2001 survey'), using exactly the same field methods. Data were collected under projects managed by The Nature Conservancy (in 1971) and the Centre for Ecology & Hydrology (in 2001). 
description: Data were collected on paper from 103 woodlands by field surveyors employed by The Nature Conservancy, Merlewood Research Station, Cumbria (in 1971) and employed under a project managed by the Centre for Ecology & Hydrology (in 2000-2003). Extensive training was undertaken by surveyors. Collected data were double punched into spreadsheets as a form of quality control before being compiled into a database. Data collected are available as four separate datasets: flora data, soil data, tree diameter data and site details.
DOI: 10.5285/9bc3dce7-7c2b-49dd-9b76-819267d7a352
title: Water quality of urban surface freshwater in Kolkata, India, June 2018 to December 2019

description: This dataset comprises field sensor physicochemical and optical/fluorescence measurements, as well as laboratory microbiological and chemical analysis, for urban surface water samples. Samples were collected at different locations throughout the urban area of Kolkata, with the latitude and longitude of all sample location provided within the spreadsheets. Samples/data were collected across three separate field surveys undertaken in June 2018 (file 1), March 2019 (file 2) and December 2019 (file 3). This dataset forms a case study of the water quality of three different types of urban surface freshwaters within the city of Kolkata, India. This case study was created to deploy a prototype multichannel fluorimeter and assess its ability to identify waters with a high bacterial load and biological contamination events through the use of Peak T fluorescence.
description: Some of the data was collected in the field at the sampling locations, whilst other analysis was conducted on samples collected at the sampling time. Field equipment was calibrated as necessary, with handheld meters being calibrated with the correct reagents weekly. The fluorimeters were calibrated before the field surveys by the manufacturer and checks were carried out before each sampling day to ensure baseline values were as expected (0 QSU or 0 FNU in DI water). Data here is provided as an average with a standard deviation to represent 1 minute (n =-60) of sampling time. The survey conducted in December 2019 provides fluorescence data as a single value due to errors in data logging. Microbiological analysis was conducted within 6 hours of the sample collection, whilst some of the nutrient analysis was conducted up to 3 weeks after samples were collected in India. These were analysed in the UK but standard preparation, storage and transportation procedures were followed.
DOI: 10.5285/a1f3d7e5-934f-4b12-ba7c-c372ce9df2c6
title: Fitness costs and benefits of intergroup interactions in banded mongooses in Queen Elizabeth National Park, Uganda, 2000-2019

description: This is a dataset on mortality costs and reproductive success from intergroup conflict in banded mongooses, collected from a wild population of banded mongooses on the Mweya Peninsula, Queen Elizabeth National Park, Uganda between 2000-2019. We observed naturally occurring, aggressive interactions between social groups and recorded data on individual mortality occurring during and as a result of fighting. We used long term observations of reproductive events to determine individual reproductive success, measured as the total number of offspring assigned to each individual over the lifetime, and the number of offspring born to each individual from extra-group mating. We recorded data on oestrus events in social groups to determine when focal and rival groups were in oestrus simultaneously, and whether they were involved in an intergroup interaction with each other. These data were collected to examine the fitness costs and benefits of intergroup conflict.
description: Intergroup interactions were recorded ad libitum during group observations between 2000 and 2019. We recorded the identities of the interacting groups, the identities of individuals that were killed during or as a result of the intergroup interaction, and their sex. We calculated the rate of mortality from intergroup conflict for males and females. We observed group reproductive events and determined the number of offspring that each individual in our population had over the course of their lifetime. We also determined how many of each individual’s offspring was a result of extra group mating. We recorded the number of intergroup interactions each individual was involved in over their lifetime. We observed group oestrus events and determined for each focal and rival group pair that were involved in an intergroup interaction the number of days they were in each of four oestrus states: focal group in oestrus, rival group in oestrus; focal group in oestrus, rival group not in oestrus; focal group not in oestrus, rival group in oestrus; focal group not in oestrus, rival group not in oestrus. We also determined the number of intergroup interactions each rival and focal group pair were involved in during each oestrus state.
DOI: 10.5285/90bdf4ff-03d9-4aa4-bcad-5139863ab188
title: Coastal Biodiversity and Ecosystem Service Sustainability (CBESS) percentage cover of plant species on salt marsh sites at Morecambe Bay and Essex

description: The dataset comprises of percentage plant cover by species observed by eye in a 1metre (m) x 1m quadrat.  Measurements were recorded at six salt marsh sites at four spatial scales: 1 metre (m) (the minimal sampling unit) nested within a hierarchy of increasing scales of 1-10 m, 10-100 m and 100-1000 m. Three of the sites were in Morecambe Bay, North West England and three of the sites were in Essex, South East England. Plant cover was measured during the winter and summer of 2013 for all six sites.

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: Plant species within each quadrat were identified and their percentage cover estimated. Results were recorded onto field sheets. These data were transferred into an Excel file. Results were exported as comma separated value files for ingestion into the EIDC. The location of the sample sites was determined by randomly allocated quadrats. Each site consisted of a rectangular area of saltmarsh between 400 x 500 m to 1000 x 1000 m in size, dependent upon saltmarsh length (parallel to shore) and width (perpendicular to shore), including part of the low, mid and high marsh zones. Twenty two 1 x 1 m quadrats were randomly allocated to each site rectangle 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).
DOI: 10.5285/e48aa7ca-e8af-482a-bebd-45291de9584f
title: Palaeolimnological data from 5 Arctic lakes in Greenland, Alaska and Norway [Lakes and Arctic Carbon]

description: This dataset contains palaeolimnological data from sediment cores taken from five Arctic lakes. Two lakes located in Alaska were cored in July 2013, one lake located in Greenland was cored in April 2013, and two lakes located in Norway were cored in March 2014. The data includes macrofossil, chironomids and Cladocera analysis at 2 cm resolution; and loss on ignition, diatoms, biogenic silica, nitrogen and carbon isotopes, algal photosynthetic pigments and pollen analyses at 1 cm resolution. All cores were subject to X-Ray Fluorescence scanning analysis at 200 or 400 micrometer resolution before subsampling.

The data were collected as part of the Lakes and Arctic Carbon project, funded under NERC's Arctic Research Programme.
description: As data is generated, checks are made to ensure values are above limits of detection. Calculations from any applied equations are checked for errors before data is accepted. Values are checked against data from previous samples taken at the same locations.
DOI: 10.5285/61561232-3307-470a-b8dc-a923b25e1641
title: Lepidoptera distribution and behaviour data from chalk grassland fragment boundaries within the Stonehenge landscape, UK, in 2011

description: This dataset consists of behaviour and distribution data of Lepidoptera from chalk grassland fragments at the Stonehenge World Heritage Site in Wiltshire, UK, in 2011. The landscape consists of small fragments of ancient chalk grassland on slopes and groups of burial mounds (barrows) which have retained many of the characteristic chalk grassland plant and butterfly species. Surveys were located at four of these chalk grassland fragments. At each chalk grassland fragment, four 20 m long survey boundaries, were set up on boundaries with adjacent land cover of either arable land or new grassland re-creation sown in the years 2009 or 2010. Control surveys were also carried out in areas of continuous habitat within the chalk grassland fragment and in the adjoining land cover type. Surveys of Lepidoptera behaviour were carried out from May to July between 10am and 4pm and effort was taken to survey the same site at different times of the day in order to minimise the effect of survey time on behaviour. Standing at the chalk grassland fragment edge the flight path of individual Lepidoptera was tracked in the survey area for up to three minutes. Measures of vegetation characteristics and nectar flower availability were recorded for each plot. Vegetation characteristics were measured as vegetation height and density and the percentage cover of bare ground and dead vegetation. Nectar resources were measured in terms of the number and percentage coverage of flowering units, the total number of nectar flowering units and of relevant families (Dipsacaceae, Fabaceae and Asteraceae). The data were collected as part of a PhD project funded by the Natural Environment Research Council and the National Trust.
description: Data provided is as collected. Outliers and anomalies from pivot tables and exploratory analysis have been checked using results from previous research, particularly for species which are likely or not likely to occur in the area.
DOI: 10.5285/89998967-a974-4136-b650-b9af9f9d6969
title: Phytoelectronic potassium sensor performance data

description: This dataset is in vitro validation of a potassium sensor that will be inserted into a plant stem. The dataset shows the sensitivity and selectivity of the fabricated potassium sensor. The data was obtained by measuring changes in electrical current with an increase in concentrations of the primary ion (K+) and interfering ion (Na+) to extract the sensitivity and selectivity, respectively using a semiconductor parameter analyser. K+ ion sensing data, measured directly inside a plant stem, are absent as the in vivo experiment should be optimised further.
description: The data were generated by measuring electrical current with an increase in ion concentrations stepwise using a semiconductor parameter analyser. There are raw data without data treatment. The applied voltage was 0 V and -0.6 V at the gate and drain terminal, respectively. Recorded output signal was drain current with the unit of ampere. This dataset was recorded in real time. Additionally, for in vitro validation, an artificial sap (Na+ 15 mM, Ca2+ 10 mM, Mg2+ 15 mM) was used with varying a K+ ion concentration.