cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5285/871c537d-2a84-432f-8597-7e895e0ffdcb
title: Genotype-phenotype association for mate choice in a Drosophila simulans-sechellia backcross population

description: The data resource contains Drosophila simulans-sechellia backcross female mate choice (phenotype) aligned with whole-genome genotypes of 692 female backcross progeny. The data was 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 ambiguous genotypes at more than 25% of markers 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-sechellia 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.com/dstern/pull_thin) 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/e4fe2ebe-b207-47d5-8c77-9873afc63da9
title: Depth and velocity measurements in the South Saskatchewan River, Canada (2015-2017)

description: Data were collected in 2015, 2016 and 2017 to provide information on the distribution of flow depth and depth-averaged flow velocity at cross-sections on the South Saskatchewan River, Canada. Data were obtained using a Sontek M9 acoustic Doppler current profiler (aDcp) mounted onto either a small zodiac boat or a SonTek Hydroboard. Data for each cross-section is recorded in a single file. Individual points within each file represent single locations on the particular cross-section.

Data were collected as part of NERC project NE/L00738X/1. 
description: Data were collected in 2015, 2016 and 2017 to provide information on the distribution of flow depth and depth-averaged flow velocity at cross-sections on the South Saskatchewan River, Canada. Data were obtained using a Sontek M9 acoustic Doppler current profiler (aDcp) mounted onto either a small zodiac boat or a SonTek Hydroboard. The position of the aDcp was recorded using a RTK dGPS system.  Velocities were calculated relative to the instrument head and were corrected using the dGPS calculated boat speed and heading. The aDcp data were collected in pulse coherent mode, averaging 7 pings per second, and were averaged to 1 Hz to improve the signal-to-noise ratio. The M9 uses 9 transducers at frequencies between 0.5 and 3.0 MHz. The accuracy of M9 velocity measurements is +/-1 cm/s. Data were collected along cross-sections of the river that extended between both banks and were aligned approximately perpendicular to the downstream flow direction. Velocities reported here are the two horizontal components of the depth-averaged velocity.

For details on files, see the supporting documentation.
DOI: 10.5285/15bbb76b-233f-4b6b-a550-c5b72c8ddbb5
title:  Traits data for the butterflies and macro-moths of Great Britain and Ireland, 2023

description: Here, we present a comprehensive traits database for the butterflies and macro-moths of Great Britain and Ireland. The database covers 968 species in 21 families. Ecological traits fall into four main categories: life cycle ecology and phenology, host plant specificity and characteristics, breeding habitat, and morphological characteristics. The database also contains data regarding species distribution, conservation status, and temporal trends for abundance and occupancy. This database can be used for a wide array of purposes including further fundamental research on species and community responses to environmental change, conservation and management studies, and evolutionary biology.

A more recent version of the dataset is available at https://doi.org/10.5285/dbc7cc17-cbbd-49dd-bab4-8e8855768d66 entitled 'Traits data for the butterflies and macro-moths of Great Britain and Ireland, 2024'.
description: Data were collated from a range of referenced sources as described in the metadata. Where required expert opinion was used to determine traits, for example regarding habitat.
DOI: 10.5285/4c058d1f-6166-4606-88a2-d2feaf036a2f
title: Insect-Flower Networks

description: The dataset contains information on the species identity and frequency of all insect-flower interactions recorded in ten birch (Betula spp.) woodland fragments surveyed in 2009 (May-August). The data were collected in two transects (50 x 2m; 15m apart and at least 50m from the woodland edge) randomly situated prior to the onset of flowering in the centre of each wood. Five of the woodland sites were disturbed by cattle grazing, while five were undisturbed. Landowners confirmed that livestock had been absent for at least 70-100 years in undisturbed sites. Where livestock were present, cattle grazing was light to moderate (e.g. 2007: mean = 8.4 cattle ha-1) and long term (mean = 33 years). The dataset comprises 13 columns, 2002 rows and is 218 KB. It gives the site name, geographic coordinates, whether it was disturbed by cattle grazing or not, the wind speed and temperature at time of sampling, the date of sampling, and the identity of the insect and plants interacting (binomial name or recognisable taxonomic unit).
description: From 20/5/2009 to 27/8/2009, the authors quantified insect visitation to flowering plants in 10 birch dominated woods either grazed or ungrazed by cattle. Insect specimens were collected along two standardised transects (50 x 2m; 15m apart) The species identity and frequency of all insect-flower interactions was recorded. Insect flower visitors were collected (netting/pooter/direct capture with vial) in situ and killed with ethyl acetate prior to transport to the laboratory at CEH. Once there specimens were identified under microscope and assigned to a binomial species (wherever possible) by CEH staff following standard keys or where binomial species identification proved impractical (taxonomically difficult groups or damaged specimens) they were assigned to a recognisable taxonomic unit (RTU). The identity and count of each insect specimen were entered directly into an Excel spreadsheet, data were checked for typographic errors by the lead investigator, and then data were aggregated to insect species by field site levels using 'pivot table' function in Excel to create a flat table. This dataset was then formatted to '.csv', metadata provided and archived in EIDC.
DOI: 10.5285/211710ac-f01b-4b52-807f-373babb1c368
title: Sub-hourly river flow data observations from 1369 river gauges in the UK, 1948-2023 (UK-Flow15)

description: This dataset provides a coherent, quality-controlled collection of 15-minute river flow observations from across the United Kingdom. It brings together more than 1,300 gauging stations and over 50,000 station-years of data collected by the main UK measuring authorities - the Environment Agency (England), Scottish Environment Protection Agency, Natural Resources Wales, the Department for Infrastructure (Northern Ireland), and the UK Centre for Ecology & Hydrology. The records span from 1948 to the present day and represent the first national-scale compilation of sub-daily flow data in a consistent format.

The dataset was created by assembling raw hydrometric records from open APIs and data requests to measuring authorities, then standardising them to a uniform 15-minute time step. A structured quality control framework was applied to identify and flag potential issues such as missing or duplicated values, irregular time steps, and implausible flow events. Each record includes a detailed quality code indicating the outcome of these checks, and a suite of accompanying metadata files provides full traceability of data provenance, quality control results, and any adjustments made during processing.

The resource is designed to support large-sample and national-scale hydrological research, particularly for applications requiring high-resolution data such as flood analysis, catchment response studies, and model calibration.
description: The dataset compiles 15-minute river flow observations from over 1,300 UK gauging stations managed by the Environment Agency, SEPA, NRW, DfI Northern Ireland, and UKCEH. Original field measurements of river stage were made using weirs, flumes, velocity-area methods, and ultrasonic sensors, then converted to discharge (m³ s⁻¹) using rating curves maintained by each authority. Data were accessed via APIs and formal requests, retaining only stations with official NRFA identifiers.

All time series were standardised to a uniform 15-minute interval, and duplicate or irregular records were corrected. A structured quality control framework was applied, including consistency checks against NRFA daily and peak-flow datasets, automated anomaly detection, and plausibility tests for high-flow events. Each observation carries a QC code, and metadata files record all processing and assessment steps. Users should consult these metadata to evaluate data suitability for specific analyses.
DOI: 10.5285/79604721-049b-42ab-a8d7-a9c8b18a193f
title: National Plant Monitoring Scheme survey data (2015-2018)

description: This data resource provides plot-level plant occurrence data for the first four years (2015-2018) of the National Plant Monitoring Scheme (covering the UK, the Channel Islands, and the Isle of Man). Data consist of individual observations of plants, and other habitat characteristics, at the metre-scale; observations are accompanied by percentage cover information recorded according to the Domin frequency-abundance scale commonly used in plant community ecology. Other information provided includes the plot type (size, shape, according to the NPMS classification), the volunteer-recorded NPMS habitat, the date of sampling, and information regarding the spatial location of the plot. Information contained within the metadata file should allow users to reconstruct the sampling history (including gaps) of any plot that has been sampled within the NPMS scheme between 2015 and 2018.

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.

Please be aware that this dataset is updated annually and that more recent versions exist.
description: Data are collected directly from volunteers into a custom Indicia database system (www.indicia.org.uk) through the NPMS website (www.npms.org.uk) or app. The Indicia system is built on a PostgreSQL/PostGIS database, and the data presented here were extracted directly from this master database using appropriate SQL queries. See the associated documentation for more information on the broader Quality Assurance processes supporting the NPMS.
DOI: 10.5285/9c3a1ae5-65d7-45c6-b6f3-1a955b17abff
title: Survival and persistence of Salmonella spp. on waste plastic and glass under laboratory conditions simulant of a peri-urban waste pile

description: This dataset contains information relating to the survival and persistence of Salmonella spp. on plastic and glass, under conditions simulant of a peri-urban waste pile. The data encompass bacterial strain identity, material type, timepoints (days), temperature (°C), bacterial concentration (CFU/ml), survival percentages, and regression parameters. Data were sampled over a 28-day period using culture-based approaches; and the ability of isolates to cause disease following their recovery was determined through the use of a Galleria mellonella model.

This work was supported by the UKRI Natural Environment Research Council (NERC) as part of the GCRF SPACES project [grant number NE/V005847/1] and the Plastic Vectors project, “Microbial hitch-hikers of marine plastics: the survival, persistence & ecology of microbial communities in the ‘Plastisphere’” [grant number NE/S005196/1].
description: Biofilm formation, persistence, pathogenicity, and die-off rates of Salmonella were investigated through controlled laboratory experiments. Biofilms were generated on various materials in nutrient-rich and surface water environments, quantified using crystal violet staining, and analysed in triplicate. Persistence was assessed by recovering Salmonella from biofilms over 28 days, followed by serial dilution, selective plating, and confirmatory PCR targeting the ttr gene.

Pathogenicity was evaluated using Galleria mellonella larvae, with standardised inoculation protocols and survival monitoring for 72 hours. Die-off rates were determined by log10 transformation of CFU counts and modelled using linear regression, with statistical analyses (ANOVA, Tukey post-hoc tests) to evaluate treatment effects. Data underwent thorough validation at each stage, including replication, selective media confirmation, and regression modelling, ensuring high reliability and accuracy before submission.
DOI: 10.5285/1c9cd70f-d0b8-49a7-a5d2-ba473a220e3e
title: Physiological variation in wild and lab-reared threespine sticklebacks from Icelandic geothermal and ambient sites

description: Data contain measurements of physiological variation in threespine stickleback from Icelandic populations.
The data includes metabolic rates measured on individual stickleback fish across three temperatures (Metabolism.csv), inter-individual variation in distances between individuals under different temperature treatments using fish from a geothermal and ambient population (Sociability.csv), and the time individuals spent under different temperatures on their own (TemperaturePreference.csv).
description: The data for metabolism came through assays of oxygen consumption within an enclosed chamber (Metabolism.csv). The data for sociability came from software used to obtain measures of distance of individuals (Sociability.csv). The temperature preference data came from an experimental set up which tracked movements of individuals automatically in temperature-controlled tanks (TemperaturePreference.csv).
DOI: 10.5285/362bff26-d2ca-4700-b1f0-22072f4bc0cc
title: Countryside Survey 1984 mapped estimates of linear feature lengths in Great Britain

description: This dataset consists of stock (length) data for linear features across Great Britain in 1984 in a vector format. The data are national estimates generated by analysing the sample data from 384 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 summer of 1984 by surveyors. Data were recorded from 384 1km squares sited across Britain, selected by random stratified sample. The boundary lines were digitized in the 1990s. 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: 10.5285/533d87d3-48c1-4c6e-9f2f-fda273ab45bc
title: Strain measurements on 21 trees in Wytham Woods, UK

description: This data contains the strain and wind data collected for 21 trees in Wytham Woods, a mature temperate woodland in southern England, from September 2015 to June 2016. This data was collected in order to (a) extract the resonant frequencies of trees, (b) to estimate the critical wind speeds at which the trees would break and (c) to test a finite element model of tree-wind dynamics. 

The strain data was collected at 4Hz using two strain gauges per tree attached at 1.3metres on the trunk and approximately perpendicular to each other. The wind data provided were collected from the canopy walkway in Wytham Woods using a cup anemometer (Vector Instruments A100LK/5M) in winter and a Gill Sonic-1 in summer, the time resolution varies between these instruments. Local climate data, including long term wind data, are available from the Environmental Change Network (https://doi.org/10.5285/fc9bcd1c-e3fc-4c5a-b569-2fe62d40f2f5 or data.ecn.ac.uk).
description: This data set consists of strain measurements for 21 trees in Wytham Woods, Oxfordshire. This data can be used to estimate the characteristic swaying behaviour of trees in the wind and to characterize the wind-strain relationship. Pairs of strain gauges were attached (approximately perpendicular to each other) to the tree trunks at 1.3m height and readings were logged at 4Hz. The data provided has been calibrated, as described in the readme file. Please contact the author (tobydjackson@gmail.com) for the raw data files. Data processing scripts can be downloaded from (https://github.com/TobyDJackson/WindAndTrees_Wytham). Wind data, measured within the canopy, is also provided.
DOI: 10.5285/6683abd8-1368-495c-9eb3-726c6c559e7e
title: Vegetation cover, vegetation carbon content and soil carbon content under five ecosystem restoration pathways for the 21st century modelled using JULES

description: The data are fractional coverage of plant functional/surface types, carbon content in vegetation, carbon content in soil. The data are the result of simulations conducted in the JULES land surface model, of several complementary pathways for increasing forest coverage and forest density during the 21st century. 

A historical simulation covering 1880-2000 is included, followed by seven future simulations for the main simulation period of 2001-2100. This is followed by an extended run for 50 further years based on 2090s climate.

Driven by Representative Concentration Pathway (RCP2.6) climatology at N96 resolution (1.25 deg latitude, 1.875 deg longitude).
description: The data are model output produced for the purpose of quantifying carbon sequestration potential of reforestation, forest restoration and agroforestry. Output by the JULES model, raw netCDF output, driven with climate from RCP2.6.
DOI: 10.5285/57ef148f-8cfb-4ba6-b673-114b22b21613
title: Survival of Salmonella Typhimurium on plastic waste under simulated environmental UV stress conditions

description: This dataset contains information relating to the survival and persistence of Salmonella spp. on plastic and glass, under conditions simulant of environmental UV exposure. The data encompass bacterial strain identity, material type, timepoints (days), temperature (°C), bacterial concentration (CFU/ml), survival percentages, and regression parameters. Data were sampled over a 21-day period using culture-based approaches; and the ability of isolates to cause disease following their recovery was determined through the use of a Galleria mellonella model.

This work was supported by the UKRI Natural Environment Research Council (NERC) as part of the GCRF SPACES project [grant number NE/V005847/1] and the Plastic Vectors project, “Microbial hitch-hikers of marine plastics: the survival, persistence & ecology of microbial communities in the ‘Plastisphere’” [grant number NE/S005196/1].

description: Biofilm formation, persistence, pathogenicity, and die-off rates of Salmonella were investigated through controlled laboratory experiments. Biofilms were generated on various materials in nutrient-rich and surface water environments and analysed by CFU analysis. Persistence was assessed by recovering Salmonella from biofilms over 28 days, followed by serial dilution, selective plating, and confirmatory PCR targeting the ttr gene.

Pathogenicity was evaluated using Galleria mellonella larvae, with standardised inoculation protocols and survival monitoring for 72 hours. Die-off rates were determined by log10 transformation of CFU counts and modelled using linear regression, with statistical analyses (ANOVA, Holm-Šídák's multiple comparisons post-hoc tests) to evaluate treatment effects. Data underwent thorough validation at each stage, including replication, selective media confirmation, and regression modelling, ensuring high reliability and accuracy before submission.
DOI: 10.5285/a8819ca7-1d16-4acf-b27c-983a73e7a7cd
title: Moth counts on chalk grassland and surrounding arable fields with agri-environment schemes in Hampshire, 2014

description: Results of moth surveys carried out at four landscapes in North-West Hampshire in June and July 2014. The data includes dates and locations of the surveys and associated counts for each of 180 moth species. Also included is information on site management, connectivity of survey sites to chalk grassland and habitat specialism of each moth species. 

Moths were surveyed in light traps for 24 nights in June/July 2014 in four landscapes in North-West Hampshire. Each survey location contained a patch of protected chalk grassland habitat surrounded mostly by arable fields. Each landscape was surveyed for six nights, with two traps being placed on the chalk grassland and the remaining eight being placed on arable fields at a range of distances from the chalk grassland patch. Traps on arable fields were alternated between arable field margins and arable field centres across the six nights. Four of eight arable field margins in each landscape comprised an area of grassland habitat created under agri-environment schemes. 
description: Macro-moth surveys were carried out by J Alison. Trapping was carried out on good weather nights with min temperature >10Ë?C, max wind speed <20km/h and max precipitation risk <50%. Surveys were carried out using ten Heath style actinic light traps (15w) fitted with solar sensors for automatic activation/deactivation at sunset/sunrise. Traps were recovered in a different order each morning, with the first trap being counted at sunrise. Before being released at the site of capture, macro-moth individuals were identified on-site or photographed for later identification. Records were cross checked by a local moth recorder.