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(autumn 2022 to summer 2025) from a common garden trial of juniper trees planted in Cardrona, the Scottish Borders. Seeds from 16 natural juniper populations were germinated, and seedlings were raised in a glasshouse at the UKCEH, Edinburgh, then planted in the field in August 2022. The field site is a seminatural research site owned by Forestry and Land Scotland and managed by Forest Research. It occupies a hillside at approximately 350 metres of elevation and with a west-southwest aspect, and grazing is controlled by deer fences and culls. \nThis deposit also includes R scripts that can be used for transformations and analyses of the data, including univariate and multivariate analyses of quantitative data and correlating these measurements with climate variables (downloaded for each source population location from the CHELSA database).\nThese plants were part of a PhD project conducted to evaluate the standing genetic diversity and adaptive capability of natural populations.","documentType":"GEMINI_DOCUMENT","familyName":["Baker","Cottrell","Ennos","Perry","Cavers"],"fullName":["Baker, J.","Cottrell, J.","Ennos, R.","Perry, A.","Cavers, S."],"funder":["Natural Environment Research Council","Scottish Forestry Trust","Scottish Research","The Botanist Foundation"],"givenName":["James","Joan","Richard","Annika","Stephen","J."],"grant":["NE/V019813/1"],"identifier":"6952cab2-35be-494f-9253-5873e7fa7f74","incomingCitationCount":0,"keyword":["Biodiversity","Evolutionary ecology","Phenology","Common juniper tree","Juniperus communs","Common garden trial","Quantitative genetics"],"keywordsOther":["Common juniper tree","Juniperus communs","Common garden trial","Phenology","Quantitative genetics","Evolutionary ecology"],"keywordsTheme":["Biodiversity","Evolutionary ecology","Phenology"],"licence":"Open government licence","lineage":"These data were recorded in the field by the depositor with the exception of the 2022 bud burst phenology data, which was recorded in the glasshouse prior to transplantation at the field site. The data included in this submission are the raw measurements, and the included R scripts include all processing and analytical steps for quantitative and phenological data. \n\nThe Chlorophyll fluorescence data was pre-processed by hand, using field notes to remove erroneous scans and match scans to the appropriate plants due to the nature of data recording and the need for proprietary software (\"Hansatech\") to access the raw data.","locations":["POLYGON((-3.185 55.591, -3.185 55.639, -3.108 55.639, -3.108 55.591, -3.185 55.591))"],"metadataDate":"2026-06-29T16:50:47.000Z","organisation":["UK Centre for Ecology & Hydrology","Forest Research","University of Edinburgh","UK Centre for Ecology and Hydrology","NERC EDS Environmental Information Data Centre"],"publicationDate":"2026-02-05T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/6952cab2-35be-494f-9253-5873e7fa7f74","10.5285/6952cab2-35be-494f-9253-5873e7fa7f74","doi:10.5285/6952cab2-35be-494f-9253-5873e7fa7f74"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/04xw4m193"],"shortenedDescription":"These data comprise 12 different measurements, including single traits (e.g. needle length) as well as repeated, yearly phenology measurements over time (autumn 2022 to summer 2025) from a common garden trial of juniper trees planted in Cardrona, the Scottish Borders.…","state":"published","title":"Quantitative genetics of common juniper trees in a common garden trial in Cardrona, Scotland, 2022-2025","topic":["0/Biodiversity/","0/Evolutionary ecology/","0/Phenology/"],"version":1.0,"view":["public","glenn"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute"],"authorFamilyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"authorFullName":["Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"authorGivenName":["L. 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Fragment risk scores integrate climate suitability and proximity to other fragments/infected sites, recent planting of these hosts (forestry grant schemes), inspected premises and water courses. Infections of P. pluvialis have been reported on Douglas fir and Western hemlock in Cornwall, Devon, Cumbria, Wales and Scotland since the outbreak was first detected in 2021. Outside of the UK, pine species (Pinus radiata, P. strobus, P. patula) are also susceptible to the pathogen. The scored fragment data were intersected with the boundaries of conservancies, local authorities and active P. pluvialis demarcated areas to summarise the distribution of risks across regions in Scotland.  ","documentType":"GEMINI_DOCUMENT","familyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"fullName":["Louise Barwell","Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"funder":["Natural Environment Research Council","Scotland's Plant Health Centre","Department for Environment Food and Rural Affairs"],"givenName":["L. J.","K.","G.","F.","D. E. L.","R.","B. 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The distributions of Douglas fir and western hemlock fragments in Scotland were mapped using the National Forest Estate Subcompartments 2019 and the Native Woodland Survey of Scotland. This was supplemented with Scottish Forestry Phytophthora surveillance data and Statutory Plant Health Notices (SPHNs) since 2013 and detections on Douglas fir or western hemlock in a global Phytophthora database. Felled areas since 2013 were removed using the National Forest Inventory. Key risk factors and their scoring were agreed with 15 cross-sectoral stakeholders through a self-completion survey and two workshops. The consensus among workshop participants was for climate suitability to be the primary risk factor. The final report was peer reviewed by the Plant Health Centre. In addition, a knowledge integration and validation workshop (November 13, 2024) examined the adequacy of the outputs for horizon scanning and decision-making across sectors. Validation of the climate suitability models for other Phytophthora species has been attempted using independent UK and European detections.","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T17:05:21.000Z","orcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-10-22T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/921fcc2e-7491-4058-a21b-3d1de0be1507","10.5285/921fcc2e-7491-4058-a21b-3d1de0be1507","doi:10.5285/921fcc2e-7491-4058-a21b-3d1de0be1507"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset maps the risks of Phytophthora pluvialis infection for 11098 forest fragments in Scotland identified as containing the known hosts Douglas fir or western hemlock. Key risk factors and their scoring were agreed with 15 cross-sectoral stakeholders through…","state":"published","title":"Spatial risk analysis for Phytophthora pluvialis infection of Douglas fir and western hemlock in Scotland","topic":["0/Environmental risk/"],"version":1.0,"view":["public","tinzha"]},{"authorAffiliation":["University of Edinburgh","UK Centre for Ecology & Hydrology"],"authorFamilyName":["Shortman","Perry","Cavers"],"authorFullName":["Shortman, J.","Perry, A.","Cavers, S."],"authorGivenName":["J.","A. ","S."],"authorOrcid":["https://orcid.org/0000-0002-7889-7597","https://orcid.org/0000-0003-2139-9236"],"authorRor":["https://ror.org/01nrxwf90","https://ror.org/00pggkr55"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"This dataset contains phenotypic data on Scots pine cones and seeds sampled from individual trees in a long-term common garden trial. For each tree, overall cone counts were conducted and five cones were sampled in February 2024. Seventeen phenotypic traits were measured for each cone between June and July 2024. Traits include cone length, cone width, cone dry weight, scale length, scale width, scale count, stalk length, profile and colour, seed number and mean seed weight. ","documentType":"GEMINI_DOCUMENT","familyName":["Shortman","Perry","Cavers"],"fullName":["Shortman, J.","Perry, A.","Cavers, S."],"funder":["Natural Environment Research Council"],"givenName":["J.","A. ","S."],"grant":["NE/V019813/1"],"identifier":"b98e92cf-6ff5-42e2-8053-021ea04db01c","incomingCitationCount":0,"keyword":["Scotland","Phenology","genetic variation","Caledonian pinewood","common garden experiment","phenotype","Pinus sylvestris","reproductive traits","Scots pine"],"keywordsOther":["genetic variation","Caledonian pinewood","common garden experiment","phenotype","Pinus sylvestris","reproductive traits","Scots pine"],"keywordsPlace":["Scotland"],"keywordsTheme":["Phenology"],"licence":"Open government licence","lineage":"A long-term common garden trial was established in 2012 at Yair (latitude 55.603625, longitude -2.893025), using five-year-old saplings. It contains trees from 8 families (where a family comprises individuals grown from seed sampled from a single common tree) from each of 21 Scottish pinewoods and is arranged into four complete randomised blocks (see supporting document for reference). \n\nOver four days in February 2024, cone number was measured as a count of all visible cones on the south-facing side of each tree. Then, five cones were sampled from each tree for trait measurement. Cone length, cone width, cone dry weight, scale length, scale width, scale count, stalk length, profile, colour, seed number and mean seed weight were all recorded for every cone. Cone ratio (cone width / length) and seed viability (number of filled seeds / number of empty seeds) were also recorded. ","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T16:37:23.000Z","orcid":["https://orcid.org/0000-0002-7889-7597","https://orcid.org/0000-0003-2139-9236"],"organisation":["University of Edinburgh","UK Centre for Ecology & Hydrology","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-01-21T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/b98e92cf-6ff5-42e2-8053-021ea04db01c","10.5285/b98e92cf-6ff5-42e2-8053-021ea04db01c","doi:10.5285/b98e92cf-6ff5-42e2-8053-021ea04db01c"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/01nrxwf90","https://ror.org/00pggkr55","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset contains phenotypic data on Scots pine cones and seeds sampled from individual trees in a long-term common garden trial. For each tree, overall cone counts were conducted and five cones were sampled in February 2024. Seventeen phenotypic traits were measured…","state":"published","title":"Long-term multisite Scots pine trial, Scotland: cone and seed phenotypes, 2024 ","topic":["0/Phenology/"],"version":1.0,"view":["public","katwri"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","Forest Research","University of Edinburgh"],"authorFamilyName":["Baker","Cottrell","Ennos","Perry","Cavers"],"authorFullName":["Baker, J.","Cottrell, J.","Ennos, R.","Perry, A.","Cavers, S."],"authorGivenName":["James","Joan","Richard","Annika","Stephen"],"authorOrcid":["https://orcid.org/0009-0003-0514-4644"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03wcc3744","https://ror.org/01nrxwf90"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"These data describe the rates of filled, viable and germinating seeds from over 60 maternal juniper trees from across the UK. 12 populations from the Scottish Highlands to Southern English Downs were sampled in Fall 2023. Four different methods of seed viability testing were applied, and germination was monitored for over a year in response to nine different combinations of pretreatments and stratifications. Reproducible analyses and visualizations from an associated study are provided with an R project. This trial was conducted to determine the optimal treatment for juniper stratification and to quantify the variability in seedlot quality/viability among populations.","documentType":"GEMINI_DOCUMENT","familyName":["Baker","Cottrell","Ennos","Perry","Cavers"],"fullName":["James Baker","Baker, J.","Cottrell, J.","Ennos, R.","Perry, A.","Cavers, S."],"funder":["Forest Research","Scottish Forestry Trust","The Botanist Foundation","UK Centre for Ecology & Hydrology","Natural Environment Research Council"],"givenName":["James","Joan","Richard","Annika","Stephen"],"grant":["NE/V019813/1"],"identifier":"64607f86-0228-4a03-9d87-6e36435028a1","incomingCitationCount":0,"keyword":["Evolutionary ecology","germination","stratification","Common Juniper","seed (biology)","plant population","conservation","conservation of species","forest conservation","forest biodiversity"],"keywordsOther":["germination","stratification","Common Juniper","seed (biology)","plant population","conservation","conservation of species","forest conservation","forest biodiversity"],"keywordsTheme":["Evolutionary ecology"],"licence":"Open government licence","lineage":"Berries were collected from populations in fall 2023, weighed, and inspected for parasitism. Seeds were extracted with a food processor; filled and empty seeds were separated using the float test, then surface sanitized and dried. Dried seeds were weighed  and stored at 4 degrees C until used. Seeds were then treated with  one of two different pretreatments, consisting of soaking them in water or a 1% Citric Acid solution for 48 hours. A Control group was also included that was not pretreated. Next, seeds were subject to one of 4 different thermal stratification treatments: A warm stratification followed by a cold stratification; just a warm stratification; just a cold stratification; and a control without a stratification treatment. Germination was then monitored for over a year, and the differences among seedlots, populations and regions of the UK were quantified. \nAdditional seedlot quality and seed viability data were also collected for all 60 seedlots included in the germination trial. The field cut test (the proportion of seeds that are visibly filled with healthy embryonic tissue when bisected), the estimated numbers of filled and empty seeds from the float test, tetrazolium chloride (TZ) staining and X-ray viability are each applied to each seedlot. These results are then compared and contrasted to evaluate their relative accuracy and precision.","locations":["POLYGON((-8.702 49.864, -8.702 59.445, 1.768 59.445, 1.768 49.864, -8.702 49.864))"],"metadataDate":"2026-06-29T16:04:52.000Z","orcid":["https://orcid.org/0009-0003-0514-4644"],"organisation":["UK Centre for Ecology & Hydrology","Forest Research","University of Edinburgh","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-09-25T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/64607f86-0228-4a03-9d87-6e36435028a1","10.5285/64607f86-0228-4a03-9d87-6e36435028a1","doi:10.5285/64607f86-0228-4a03-9d87-6e36435028a1"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03wcc3744","https://ror.org/01nrxwf90","https://ror.org/04xw4m193"],"shortenedDescription":"These data describe the rates of filled, viable and germinating seeds from over 60 maternal juniper trees from across the UK. 12 populations from the Scottish Highlands to Southern English Downs were sampled in Fall 2023. Four different methods of seed viability testing…","state":"published","title":"Seed traits, seed viability and germination rates of seeds collected from 12 natural Juniper (Juniperus communis) populations in the UK, 2023-2025","topic":["0/Evolutionary ecology/"],"version":1.0,"view":["public","elsdhi"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute"],"authorFamilyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"authorFullName":["Barwell, L.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"authorGivenName":["L.","K.","G.","F.","D.E.L","R.","B.V"],"authorOrcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03rzp5127"],"availability":"Available","catalogue":"eidc","dataFormat":["TIFF","GeoPackage"],"description":"This dataset scores the relative risks of Phytophthora x alni infection for 50034 fragments in Scotland identified as containing any of the three alder species susceptible to the pathogen (common alder, Italian alder and grey alder). Fragment risk scores integrate climate suitability (using pathogen-specific temperature-dependent growth curves and a relative humidity threshold), proximity to rivers/flooding, connectivity to other alder fragments via flood events and recent planting of alder under forestry grant schemes. Data and models used to score risk factors are variable in their time frames, but are broadly representative of the period from 2013 to 2023. Phytophthora disease of alder has been widespread in southern England since at least 1995 and became more prevalent in annual surveys between 1994 and 2003. It has been confirmed at several riparian sites in Scotland. P. x alni diseases are reported only from the alder genus.","documentType":"GEMINI_DOCUMENT","familyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"fullName":["Louise Barwell","Barwell, L.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"funder":["Natural Environment Research Council","Scotland's Plant Health Centre","Department for Environment Food and Rural Affairs"],"givenName":["L.","K.","G.","F.","D.E.L","R.","B.V"],"grant":["NE/V019813/1","PHC2023/02","TH12224FR10"],"identifier":"824f9ba8-7d1c-4a82-b5ec-a4f850f1d370","incomingCitationCount":0,"keyword":["Environmental risk","Environmental survey","biodiversity","exotic species","forest","forestry","habitat","pathogenic organism","pest","phytopathology","risk assessment","Scotland"],"keywordsOther":["biodiversity","exotic species","forest","forestry","habitat","pathogenic organism","pest","phytopathology","risk assessment","Scotland"],"keywordsTheme":["Environmental risk","Environmental survey"],"licence":"Open government licence","lineage":"We employed an iterative and collaborative co-production process that brought together stakeholders with diverse expertise from across Scotland's plant health sector representing forestry, conservation, horticulture, and government agencies through a semi-structured process of survey and workshops. Fragments containing alder species were extracted from the National Forest Estate Sub-compartments 2019, Native Woodland Survey of Scotland and global database of host-Phytophthora detections, removing any felled areas since 2013 using the National Forest Inventory. Key risk factors (climate suitability, proximity to rivers/flooding, connectivity to other alder fragments via flood events and recent planting of alder) and their scoring were agreed with 15 cross-sectoral stakeholders through a self-completion survey and two workshops. The final report was peer reviewed by the Plant Health Centre. In addition, a knowledge integration and validation workshop (November 13, 2024) examined the adequacy of the outputs for horizon scanning and decision-making across sectors. Validation of the climate suitability models has been attempted using independent UK and European detections of Phytophthora x alni.","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T17:23:53.000Z","orcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-10-08T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/824f9ba8-7d1c-4a82-b5ec-a4f850f1d370","10.5285/824f9ba8-7d1c-4a82-b5ec-a4f850f1d370","doi:10.5285/824f9ba8-7d1c-4a82-b5ec-a4f850f1d370"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset scores the relative risks of Phytophthora x alni infection for 50034 fragments in Scotland identified as containing any of the three alder species susceptible to the pathogen (common alder, Italian alder and grey alder). Fragment risk scores integrate climate…","state":"published","title":"Spatial risk analysis for Phytophthora x alni infection of alder fragments in Scotland","topic":["0/Environmental risk/","0/Environmental survey/"],"version":1.0,"view":["public","tinzha"]},{"authorAffiliation":["University of Stirling","University of Manchester","UK Centre for Ecology & Hydrology","Universität Innsbruck","Helmholtz Zentrum München","Bangor University","Lancaster University"],"authorFamilyName":["Broadbent","Pritchard","Newbold","Giunta","Schloter","Bahn","Griffiths","Bardgett"],"authorFullName":["Broadbent, A.","Pritchard, W.","Newbold, L.","Giunta, A.","Schloter, M.","Bahn, M.","Griffiths, R.","Bardgett, R."],"authorGivenName":["A.","W.","L.","M.","R."],"authorOrcid":["https://orcid.org/0000-0002-8438-7163"],"authorRor":["https://ror.org/045wgfr59","https://ror.org/027m9bs27","https://ror.org/00pggkr55","https://ror.org/054pv6659","https://ror.org/00cfam450","https://ror.org/006jb1a24","https://ror.org/04f2nsd36"],"availability":"Embargoed","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"This dataset contains information about soil biogeochemical parameters from a lab manipulation experiment that was part of a study testing freeze-thaw and drought effects on alpine soil microbial communities and biogeochemistry. The soil was collected from Vent, Austria in March 2021. It was then shipped to the Soil and Ecosystem Ecology Lab at the University of Manchester, where the experiment was conducted in April -  August 2021.  Various soil biogeochemical properties were measured on destructively harvested samples at five experimental timepoints. The soil samples had been subjected to different treatment combinations throughout the experiment (see lineage for details). For details on each parameter, see the supporting documentation.","documentType":"GEMINI_DOCUMENT","familyName":["Broadbent","Pritchard","Newbold","Giunta","Schloter","Bahn","Griffiths","Bardgett"],"fullName":["Arthur Broadbent","Broadbent, A.","Pritchard, W.","Newbold, L.","Giunta, A.","Schloter, M.","Bahn, M.","Griffiths, R.","Bardgett, R."],"funder":["Natural Environment Research Council"],"givenName":["A.","W.","L.","M.","R."],"grant":["NE/T007222/1"],"identifier":"d7b9c848-2bd2-4c33-b017-151116081abf","incomingCitationCount":0,"keyword":["Climate and climate change","Soil","alpine","biogeochemistry","climate change"],"keywordsOther":["alpine","biogeochemistry","climate change"],"keywordsTheme":["Climate and climate change","Soil"],"licence":"Open government licence","lineage":"Soil (10-cm depth) was collected in the field (field site near Vent, Austria) using a spade and shipped to the University of Manchester on ice. An incubation experiment was run testing freeze-thaw and drought effects. The experimental treatments included freeze-thaw cycle frequency (0, 1, 2 and 4 cycles of freezing and thawing) followed by drought intensity (9 point gradient of 10-60% Water Holding Capacity (WHC) of soil). Samples were destructively harvested and soil biogeochemical data were measured using a Seal AA3 Segmented Flow Multi-chemistry analyser (Seal Analytical, UK), a 5000A TOC analyser (Shimadzu, Japan), and an Elementar Vario EL elemental analyser (Hanau, Germany) at the Soil and Ecosystem Ecology Lab at the University of Manchester. Specifically, dissolved organic carbon (DTOC) and nitrogen (DON); dissolved NH4+ (DNH4) and NO3- (DNO3); KCl-extracted NH4+ (ENH4) and NO3- (ENO3); Microbial biomass C (MBC), N (MBN), and C:N ratio (MBCN); soil %C (pct_C), %N (pct_N) and C:N ratio (CN_ratio). All instruments were calibrated to cover the full range of sample values. This varied depending on the timepoint, instrument and variable being analysed. Standard practice and protocols within the Soil Ecology and Ecosystem lab at the University of Manchester were followed at all times. Any samples that fell outwith the calibrated range of the instrument were re-analysed with a new calibration to cover the extended range. Appropriate quality control standards were inserted approximately every 20 samples on every run on each instrument to determine the readings were accurate. Three blanks of the extraction matrix (i.e., water, KCl or K2SO4) were measured during every run and subtracted from the samples to account for background concentrations. If errors were detected, the instruments were repaired, and samples were re-run. Raw data were converted into concentrations (per gram of dry soil).","locations":["POLYGON((10.897 46.863, 10.897 46.863, 10.897 46.863, 10.897 46.863, 10.897 46.863))"],"metadataDate":"2026-06-27T18:59:53.000Z","orcid":["https://orcid.org/0000-0002-8438-7163"],"organisation":["University of Stirling","University of Manchester","UK Centre for Ecology & Hydrology","Universität Innsbruck","Helmholtz Zentrum München","Bangor University","Lancaster University","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-11-28T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/d7b9c848-2bd2-4c33-b017-151116081abf","10.5285/d7b9c848-2bd2-4c33-b017-151116081abf","doi:10.5285/d7b9c848-2bd2-4c33-b017-151116081abf"],"resourceType":"Dataset","rightsHolder":["University of Manchester"],"ror":["https://ror.org/045wgfr59","https://ror.org/027m9bs27","https://ror.org/00pggkr55","https://ror.org/054pv6659","https://ror.org/00cfam450","https://ror.org/006jb1a24","https://ror.org/04f2nsd36","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset contains information about soil biogeochemical parameters from a lab manipulation experiment that was part of a study testing freeze-thaw and drought effects on alpine soil microbial communities and biogeochemistry. The soil was collected from Vent, Austria…","state":"published","title":"Soil biogeochemical data from an incubation experiment testing freeze-thaw and drought effects on alpine soil from Vent, Austria","topic":["0/Climate and climate change/","0/Soil/"],"version":1.0,"view":["public","clwe"]},{"authorAffiliation":["University of Oxford"],"authorFamilyName":["Whatmore"],"authorFullName":["Whatmore, S."],"authorGivenName":["S."],"authorRor":["https://ror.org/052gg0110"],"availability":"Available","catalogue":"eidc","dataFormat":["Microsoft Word (docx)"],"description":"This dataset consists of computer code transcripts for two proprietary flood risk models from a study as part of the NERC Rural Economy and Land Use (RELU) programme. This project was conceived in order to address the public controversies generated by the risk management strategies and forecasting technologies associated with diffuse environmental problems such as flooding and pollution. Environmental issues play an ever-increasing role in all of our daily lives. However, controversies surrounding many of these issues, and confusion surrounding the way in which they are reported, mean that sectors of the public risk becoming increasingly disengaged. To try to reverse this trend and regain public trust and engagement, this project aimed to develop a new approach to interdisciplinary environmental science, involving non-scientists throughout the process. Examining the relationship between science and policy, and in particular how to engage the public with scientific research findings, a major diffuse environmental management issue was chosen as a focus - flooding. As part of this approach, non-scientists were recruited alongside the investigators in forming Competency Groups - an experiment in democratising science. The Competency Groups were composed of researchers and laypeople for whom flooding is a matter of particular concern. The groups worked together to share different perspectives - on why flooding is a problem, on the role of science in addressing the problem, and on new ways of doing science together. We aimed to achieve four substantive contributions to knowledge: 1. To analyse how the knowledge claims and modelling technologies of hydrological science are developed and put into practice by policy makers and commercial organisations (such as insurance companies) in flood risk management. 2. To develop an integrated model for forecasting the in-river and floodplain effects of rural land management practices. 3. To experiment with a new approach to public engagement in the production of interdisciplinary environmental science, involving the use of Competency Groups. 4. To evaluate this new approach to doing public science differently and to identify lessons learnt that can be exported beyond this particular project to other fields of knowledge controversy. This dataset consists of computer code transcripts for two proprietary flood risk models. Flood risk and modelling interview transcripts from this study are available at the UK Data Archive under study number 6620 (see online resources). Further documentation for this study may be found through the RELU Knowledge Portal and the project's ESRC funding award web page (see online resources).","documentType":"GEMINI_DOCUMENT","familyName":["Whatmore","Lane","Willis"],"fullName":["Whatmore, S.","Lane, S.","Willis, G."],"funder":["RELU"],"givenName":["S.","Stuart","Gillian"],"grant":["RES-227-25-0018"],"identifier":"0a385f48-9ae8-44be-af02-39fbebac1bf5","incomingCitationCount":0,"keyword":["Rural Economy and Land Use Programme","Understanding Environmental Knowledge Controversies: the Case for Flood Risk Management","Malton","North yorkshire","Pickering","Ryedale (district)","Academic personnel","Environmental engineering","Environmental management","Environmental policy","Floods","Land drainage","Modelling","Public opinion","Rural planning","Science policy","Specialists","Specialization","2007-2010"],"keywordsOther":["Malton","North yorkshire","Pickering","Ryedale (district)","Academic personnel","Environmental engineering","Environmental management","Environmental policy","Floods","Land drainage","Modelling","Public opinion","Rural planning","Science policy","Specialists","Specialization","2007-2010"],"keywordsProject":["Rural Economy and Land Use Programme","Understanding Environmental Knowledge Controversies: the Case for Flood Risk Management"],"licence":"Non-Open government licence","lineage":"Research funded by Economic and Social Research Council, Natural Environment Research Council and Biotechnology and Biological Sciences Research Council. Award Number: RES-224-26-0041 Development of two new models was undertaken with the basic aim of estimating the effects of rural land management measures upon downstream flood risk in two separate case studies; Pickering ('bunding' model) and Uckfield ('overflow' model). The focus of these modelling approaches was on harnessing a greater depth of the information available to the modeller than perhaps traditionally used. In addition, the model development process was steered by Competency Groups in each respective area. This collaborative process drew on three identifiable knowledge sources: 1. experiential, as held by both academics and local members of the CGs 2. theoretical and encoded to the ways in which we tend to see the world as Newtonian (e.g. flood water has to go somewhere; it must conserve mass) 3 data-based, in terms of the records of rainfall and water level that we had obtained and which were used to develop and to test assumptions The two models developed were specifically tailored to the regional flooding problem by the innovative development process.","locations":["POLYGON((-6.375 49.9, -6.375 55.82, 1.79 55.82, 1.79 49.9, -6.375 49.9))"],"metadataDate":"2026-06-27T20:01:02.000Z","organisation":["University of Oxford","Durham University","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre"],"publicationDate":"2008-09-30T00:00:00.000Z","recordType":"Software","resourceIdentifier":["1414489256812","CEH:EIDC::1414489256812","https://catalogue.ceh.ac.uk/id/0a385f48-9ae8-44be-af02-39fbebac1bf5"],"resourceType":"Software","rightsHolder":["University of Oxford"],"ror":["https://ror.org/052gg0110","https://ror.org/01v29qb04","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset consists of computer code transcripts for two proprietary flood risk models from a study as part of the NERC Rural Economy and Land Use (RELU) programme. This project was conceived in order to address the public controversies generated by the risk management…","state":"published","supplementalName":["RELU Data Archive"],"title":"Flood model scripts - RELU Understanding environmental knowledge controversies","version":1.0,"view":["public","rstu"]},{"authorAffiliation":["Centre for Ecology & Hydrology","Rothamsted Research","Bangor University"],"authorFamilyName":["Goodall","Griffiths","Blaud","Abadie","Clark","Hirsch","Carswell","Misselbrook","Sánchez-Rodríguez","Chadwick","Jones","Reinsch"],"authorFullName":["Goodall, T.I.","Griffiths, R.I.","Blaud, A.","Abadie, M.","Clark, I.M.","Hirsch, P.R.","Carswell, A.M.","Misselbrook, T.H.","Sánchez-Rodríguez, A.R.","Chadwick, D.R.","Jones, D.L.","Reinsch, S."],"authorGivenName":["T.I.","R.I.","A","M.","I.M.","P.R.","A.M.","T.H.","A.R.","D.R.","D.L.","S."],"authorOrcid":["https://orcid.org/0000-0003-0860-8080","https://orcid.org/0000-0002-1589-5420","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0003-4649-0677"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/0347fy350","https://ror.org/006jb1a24"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The data consist of nitrogen gene data, soil biodiversity indices and microbial community composition for three soil depths (0-15, 15-30 and 30-60 cm) from a winter wheat field experiment located in the United Kingdom and collected between April 2017 and August 2017. The sites were Rothamsted Research at North Wyke in Devon  and Bangor University at Henfaes Research Station in North Wales.\n\nAt each site measurements were taken from 15 plots, organised within a randomised complete block design where 5 plots did not receive fertilizers (controls), 5 plots received food-based digestate, and 5 plots received acidified food based digestate a nitrification inhibitor. Soil samples were taken within two weeks of digestate application and shortly before winter wheat harvest.\n\nSoil chemical parameters were: soil nitrate, ammonium, dissolved organic carbon and nitrogen, amino acids and peptides, soil organic matter content as loss-on-ignition, pH, sodium, potassium, calcium, magnesium, permanganate oxdisable carbon citric acid extractable phosphorous, Olsen-P and total carbon, nitrogen and phosphorus. Soil biological measure were: microbial biomass carbon and nitrogen. \n\nSoil samples were taken by members of staff from Centre of Ecology & Hydrology (Bangor), Bangor University, School of Environment, Natural Resources & Geography Sustainable Agricultural Sciences, and Rothamsted Research North Wyke. Measurements were carried out Rothamsted Research Harpenden and the Centre of Ecology & Hydrology (Wallingford). Soil physico-chemical parameters were measured on the same soil samples and are presented in a related dataset. https://catalogue.ceh.ac.uk/id/90df9dfa-a0c8-4ead-a13d-0a0a13cda7ab\n\nData was collected for the Newton Fund project “UK-China Virtual Joint Centre for Improved Nitrogen Agronomy”. Funded by Biotechnology and Biological Sciences Research Council (BBSRC) and NERC -  Ref BB/N013468/1","documentType":"GEMINI_DOCUMENT","familyName":["Reinsch","Goodall","Griffiths","Blaud","Abadie","Clark","Hirsch","Carswell","Misselbrook","Sánchez-Rodríguez","Chadwick","Jones"],"fullName":["Reinsch, S.","Goodall, T.I.","Griffiths, R.I.","Blaud, A.","Abadie, M.","Clark, I.M.","Hirsch, P.R.","Carswell, A.M.","Misselbrook, T.H.","Sánchez-Rodríguez, A.R.","Chadwick, D.R.","Jones, D.L."],"funder":["Biotechnology and Biological Sciences Research Council"],"givenName":["S.","T.I.","R.I.","A","M.","I.M.","P.R.","A.M.","T.H.","A.R.","D.R.","D.L."],"grant":["BB/N013468/1"],"identifier":"391c0294-07f1-4856-b592-428bd44055ca","incomingCitationCount":0,"keyword":["winter wheat","nitrogen","fertiliser","digestate","operational taxonomic unit","diversity index","bacterial community composition"],"keywordsOther":["winter wheat","nitrogen","fertiliser","digestate","operational taxonomic unit","diversity index","bacterial community composition"],"licence":"Open government licence","lineage":"Soil samples were taken by members of staff from the different sites. Samples were sent to Rothamsted Research Harpenden for DNA extractions and extracts were analysed for nitrogen genes (nifH, amoA, nirK, nirS, nosZ, ureC). Extracts were also sent to CEH Wallingford for analyses of operational taxonomic units (OTUs').\n\nSoil community DNA was extracted from 0.25 grams soil using the MoBio DNA PowerSoil DNA isolation kit (Mo Bio Laboratories, Inc. Carlsbad, CA), following manufacturer’s protocol. Extracted DNA was quantified by fluorometer Qubit® 2.0 dsDNA BR Assay Kit (Thermo Fisher Scientific) and quality checked by nanodrop (Thermo Fisher Scientific).\n\nQuantitative-Polymerase chain reaction (qPCR) protocols were followed as detailed in De Sosa et al. 2018.\n\nExtracted DNA was supplied from Rothamsted Research in Harpenden for amplicon sequencing at the facilities of the Molecular Ecology Group, Centre for Ecology & Hydrology, Wallingford. <50 μL volumes of DNA extract were supplied in 96-well plate format, these were subject to 16S Ribosomal ribonucleic acid (rRNA) amplicon sequencing as described in Kozich 2013 and Internal transcribed spacer (ITS) rRNA amplicon sequencing employing the Kozich 2013 strategy and Ihrmark 2012.\n\nAll results were entered into a Microsoft Excel spreadsheet and converted to .csv files for ingestion into the Environmental Information Data Centre.","locations":["POLYGON((-4.022 50.767, -4.022 53.241, -3.892 53.241, -3.892 50.767, -4.022 50.767))"],"metadataDate":"2026-06-29T18:13:31.000Z","orcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0003-0860-8080","https://orcid.org/0000-0002-1589-5420","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209"],"organisation":["UK Centre for Ecology & Hydrology","Centre for Ecology & Hydrology","Rothamsted Research","Bangor University","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre"],"publicationDate":"2019-04-23T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/391c0294-07f1-4856-b592-428bd44055ca","10.5285/391c0294-07f1-4856-b592-428bd44055ca","doi:10.5285/391c0294-07f1-4856-b592-428bd44055ca"],"resourceType":"Dataset","ror":["https://ror.org/00pggkr55","https://ror.org/0347fy350","https://ror.org/006jb1a24","https://ror.org/04xw4m193"],"shortenedDescription":"The data consist of nitrogen gene data, soil biodiversity indices and microbial community composition for three soil depths (0-15, 15-30 and 30-60 cm) from a winter wheat field experiment located in the United Kingdom and collected between April 2017 and August 2017.…","state":"published","supplementalDescription":["Kozich, J.J., Westcott, S.L., Baxter, N.T., Highlander, S. K., & Schloss, P.D. (2013). Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform. Applied and Environmental Microbiology, 79(17), 5112–5120.","de Sosa, L.L., Glanville, H.C., Marshall, M.R., Schnepf, A., Cooper, D.M., Hill, P.W., … Jones, D.L. (2018). Stoichiometric constraints on the microbial processing of carbon with soil depth along a riparian hillslope. Biology and Fertility of Soils, 54(8), 949–963."],"supplementalName":["The UK-China Virtual Joint Centre for Improved Nitrogen Agronomy (CINAG)"],"title":"Soil biological properties from a digestate experiment on winter wheat at North Wyke and Henfaes Farm, UK (2017)","version":1.0,"view":["public","danor"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","Forest Research","James Hutton Institute"],"authorFamilyName":["Perry","Baden","Beaton","Cottrell","Dickenmann","Donnelly","Lobo-Guerrero Villegas","Mullett","Nemeth","Stockan","Cavers"],"authorFullName":["Perry, A.","Baden, R.","Beaton, J.K.","Cottrell, J.E.","Dickenmann, L.","Donnelly, K.","Lobo-Guerrero Villegas, J.P.","Mullett, M.","Nemeth, K.","Stockan, J.A.","Cavers, S."],"authorGivenName":["Annika","Richard","Joan K","Joan E","Luisa","Kevin","Juan Pablo","Martin","Krisztian","Jenni A","Stephen"],"authorOrcid":["https://orcid.org/0000-0002-7889-7597","https://orcid.org/0000-0001-7633-9113","https://orcid.org/0000-0002-6013-0347","https://orcid.org/0000-0001-9900-9010","https://orcid.org/0000-0003-2139-9236"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03wcc3744","https://ror.org/03rzp5127"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The dataset contains disease survey data for Scots pine trees in a long-term progeny-provenance common garden trial planted in three sites in Scotland. Trees were originally collected from 21 provenances of native Caledonian pinewood from across the native range in Scotland. \n\nDisease surveys were performed annually between August and September from 2015 to 2025 (excluding 2019 and 2020) for one site (FS) and in 2016 and 2022 for two sites (FE and FW). Susceptibility to Dothistroma needle blight (DNB, caused by Dothistroma septosporum) for each tree was estimated by recording two traits: 'direct susceptibility' (estimated percentage of needles with lesions) and 'indirect susceptibility' (estimated years needle retention). Indirect susceptibility was recorded to ensure needle loss associated with susceptibility to DNB was also captured. In addition to annual measures of susceptibility, long-term susceptibility was also estimated for each tree.","documentType":"GEMINI_DOCUMENT","familyName":["Perry","Baden","Beaton","Cottrell","Dickenmann","Donnelly","Lobo-Guerrero Villegas","Mullett","Nemeth","Stockan","Cavers"],"fullName":["Annika Perry","Perry, A.","Baden, R.","Beaton, J.K.","Cottrell, J.E.","Dickenmann, L.","Donnelly, K.","Lobo-Guerrero Villegas, J.P.","Mullett, M.","Nemeth, K.","Stockan, J.A.","Cavers, S."],"funder":["Natural Environment Research Council","Biotechnology and Biological Sciences Research Council","Department for Environment Food and Rural Affairs"],"givenName":["Annika","Richard","Joan K","Joan E","Luisa","Kevin","Juan Pablo","Martin","Krisztian","Jenni A","Stephen"],"grant":["NE/V019813/1","BB/W020378/1","CFP2206"],"identifier":"c3b45aac-a497-4e57-9ee0-8cdd8677f5de","incomingCitationCount":0,"keyword":["Evolutionary ecology","Environmental survey","adaptive capacity","Caledonian pinewood","Common garden experiment","Tree health","Pinus sylvestris","Scots pine","Dothistroma needle blight","Dothistroma septosporum"],"keywordsOther":["adaptive capacity","Caledonian pinewood","Common garden experiment","Tree health","Pinus sylvestris","Scots pine","Dothistroma needle blight","Dothistroma septosporum"],"keywordsTheme":["Evolutionary ecology","Environmental survey"],"licence":"Open government licence","lineage":"Disease surveys were performed by visual observation. Recorders were experienced in detection and identification of symptoms of Dothistroma needle blight.\n\nAnnual direct susceptibility was recorded in 5% increments where 1% is equivalent to negligible symptoms. Annual indirect susceptibility was recorded in 0.5 year increments of needle retention, except for 2016 which was recorded in 0.25 year increments. \n\nFrom 2015 to 2017 (inclusive) a single value for each of direct and indirect susceptibility was recorded per tree. From 2018 to 2025 separate estimates were made for each trait for the top, middle and bottom of the crown for each tree and a mean value calculated per tree per year for each trait. \n\nFor the FS site (where nine annual surveys were conducted), long-term direct and indirect susceptibility were calculated using an Area Under the Disease Progress (AUDPS) approach. For the FE and FW sites (where two annual surveys were conducted), long-term direct and indirect susceptibility values for each tree were obtained from the mean value across the two surveys for each trait.","locations":["POLYGON((-6.064 55.473, -6.064 58.043, -1.999 58.043, -1.999 55.473, -6.064 55.473))"],"metadataDate":"2026-06-29T18:26:04.000Z","orcid":["https://orcid.org/0000-0002-7889-7597","https://orcid.org/0000-0001-7633-9113","https://orcid.org/0000-0002-6013-0347","https://orcid.org/0000-0001-9900-9010","https://orcid.org/0000-0003-2139-9236"],"organisation":["UK Centre for Ecology & Hydrology","Forest Research","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2026-05-07T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/c3b45aac-a497-4e57-9ee0-8cdd8677f5de","10.5285/c3b45aac-a497-4e57-9ee0-8cdd8677f5de","doi:10.5285/c3b45aac-a497-4e57-9ee0-8cdd8677f5de"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03wcc3744","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"The dataset contains disease survey data for Scots pine trees in a long-term progeny-provenance common garden trial planted in three sites in Scotland. Trees were originally collected from 21 provenances of native Caledonian pinewood from across the native range in…","state":"published","title":"Long-term multisite Scots pine trial, Scotland: annual Dothistroma needle blight surveys, 2015-2025","topic":["0/Evolutionary ecology/","0/Environmental survey/"],"version":1.0,"view":["public","elsdhi"]},{"authorAffiliation":["Centre for Ecology & Hydrology","Bangor University","Rothamsted Research"],"authorFamilyName":["Reinsch","Lebron","Sánchez-Rodríguez","Carswell","Carter","Chadwick","Cotton","Guyatt","Harvey","Hunt","Jones","Keenan","Lawlor","Marshall","Misselbrook","Patel","Pinder","Pereira","Saunders","Tanna","Thompson","Emmett"],"authorFullName":["Reinsch, S.","Lebron, I.","Sánchez-Rodríguez, A.R.","Carswell, A.M.","Carter, H.","Chadwick, D.R.","Cotton, J.M.","Guyatt, H.","Harvey, R.","Hunt, A.","Jones, D.L.","Keenan, P.O.","Lawlor, A.J.","Marshall, M.R.","Misselbrook, T.H.","Patel, M.","Pinder, A.P.","Pereira, M.G.","Saunders, K.S.","Tanna, B.","Thompson, N.","Emmett, B.A."],"authorGivenName":["S.","I.","A.R.","A.M.","H.","D.R.","J.M.","R.","A.","D.L.","P.O.","A.J.","M.R.","T.H.","M.","A.P.","M.G.","K.S.","B.","N.","B.A."],"authorOrcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0001-8610-9717","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0003-2869-0616","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0002-2713-4389"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/006jb1a24","https://ror.org/051h34p92"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The data consist of soil physicochemical and biological data for three soil depths (0-15, 15-30 and 30-60 cm) from a winter wheat field experiment located at two research sites in the United Kingdom. Soil samples were collected between April 2017 and August 2017. Extractions and measurements were carried out thereafter. The sites were Rothamsted Research at North Wyke in Devon and Bangor University at Henfaes Research Station in North Wales.\n\nAt each site measurements were taken from 15 plots, organised within a randomised complete block design where 5 plots did not receive fertilizers (controls), 5 plots received food-based digestate, and 5 plots received acidified food based digestate and the nitrification inhibitor 3,4-dimethylpyrazole (DMPP; ADNI). Soil samples were taken within 2 weeks of digestate application and shortly before winter wheat harvest.\n\nMicrobial community composition and nitrogen genes were measured on the same soil samples and are presented in a separate dataset (https://catalogue.ceh.ac.uk/id/391c0294-07f1-4856-b592-428bd44055ca).\n\nSoil samples were taken by members of staff from Centre of Ecology & Hydrology (Bangor), Bangor University, School of Environment, Natural Resources & Geography Sustainable Agricultural Sciences, and Rothamsted Research North Wyke. Measurements were carried out Rothamsted Research Harpenden and the Centre of Ecology & Hydrology (Wallingford).\n\nData was collected for the Newton Fund project “UK-China Virtual Joint Centre for Improved Nitrogen Agronomy”. Funded by Biotechnology and Biological Sciences Research Council (BBSRC) and NERC - Ref BB/N013468/1","documentType":"GEMINI_DOCUMENT","familyName":["Reinsch","Lebron","Sánchez-Rodríguez","Carswell","Carter","Chadwick","Cotton","Guyatt","Harvey","Hunt","Jones","Keenan","Lawlor","Marshall","Misselbrook","Patel","Pinder","Pereira","Saunders","Tanna","Thompson","Emmett"],"fullName":["Reinsch, S.","Lebron, I.","Sánchez-Rodríguez, A.R.","Carswell, A.M.","Carter, H.","Chadwick, D.R.","Cotton, J.M.","Guyatt, H.","Harvey, R.","Hunt, A.","Jones, D.L.","Keenan, P.O.","Lawlor, A.J.","Marshall, M.R.","Misselbrook, T.H.","Patel, M.","Pinder, A.P.","Pereira, M.G.","Saunders, K.S.","Tanna, B.","Thompson, N.","Emmett, B.A."],"funder":["Biotechnology and Biological Sciences Research Council"],"givenName":["S.","I.","A.R.","A.M.","H.","D.R.","J.M.","R.","A.","D.L.","P.O.","A.J.","M.R.","T.H.","M.","A.P.","M.G.","K.S.","B.","N.","B.A.","Sabine"],"grant":["BB/N013468/1"],"identifier":"90df9dfa-a0c8-4ead-a13d-0a0a13cda7ab","incomingCitationCount":0,"keyword":["CINAg","CENTRE FOR IMPROVED NITROGEN AGRONOMY","fertilisers","nitrogen","digestate","nitrogen genes","diversity indices","Operational taxonomic unit","microbial community composition","soil properties"],"keywordsOther":["soil properties"],"keywordsProject":["CINAg","CENTRE FOR IMPROVED NITROGEN AGRONOMY"],"keywordsTheme":["fertilisers","nitrogen","digestate","nitrogen genes","diversity indices","Operational taxonomic unit","microbial community composition"],"licence":"Open government licence","lineage":"Soil samples were taken by members of the sites. At North Wyke and Henfaes farm, staff from CEH Bangor helped taking the samples. Two sets of soil cores were taken. One was sent in cooling boxes on ice to CEH Bangor for measuring soil physicochemical properties. The second set was send to Rothamsted Research Harpenden for the analysis of nitrogen genes and microbial community composition (related dataset). The topsoil 0-15 cm were taken with the same type of corer across the sites, samples below 15 cm soil depth were sampled with corers available at the sites. Samples were wet sieved to 5 mm by staff from Bangor University and CEH Bangor. Subsamples of these were analysed for physicochemical and biological parameters.\n\nNitrate (NO3‒), Ammonium (NH4+), Dissolved Organic Carbon (DOC), Dissolved Organic Nitrogen (DON), amino acids, peptides and proteins: extraction with 0.5 M Potassium Sulphate) K2SO4, 5 g soil and 25 ml extractant, after sieving through 5 mm. The supernatant was stored at −20 degrees Celsius until analyses. (Bangor University)\n\nTotal dissolved organic carbon (DOC) and total dissolved Nitrogen (TDN) were measured using a Multi N/C 2100/2100 analyser (AnalytikJena AG, Jena, Germany). Dissolved organic Nitrogen (DON) was calculated by subtracting ammonium (NH4+) and nitrate (NO3−) from the TDN value. (Bangor University)\n\nAmmonium in the supernatant was determined colorimetrically using the salicylate method of Mulvaney (1996) and NO3− following the salicylate method of Miranda et al. (2001) in an Epoch® microplate spectrophotometer (Bio Tek Instruments Inc., Winooski, VT). (Bangor University)\n\nMicrobial biomass carbon and nitrogen were calculated in a similar way than DOC and DON but the 5 grams of soil were kept for 7 days in a desiccator with chloroform (to kill the microorganisms). The difference between DOC, DON after these 7 days (and after extraction as explained before) and the initial values (calculated in the previous paragraph) between 0.45 for microbial C and 0.54 for microbial N were microbial C and microbial N, respectively. (Bangor University)\n\nAmino acids and peptides were measured using a Cary Eclipse Fluorescence Spectrophotometer with a ProStar Solvent Delivery Module (Varian, USA). (Bangor University)\nTexture. Particle size distribution was measured using a Beckman-Coulter LS 13320 laser diffraction particle size analyser.  We manually quarter 0.5 g subsample from the soil, remove organic matter using Hydrogen peroxide (H2O2) and transfer the sample into 250 mL bottle, we added 5 mL of 5 percent Calgon and shaked overnight. The entire contents of the bottle was introduced to the laser analyser for measuring particles size distribution. (CEH Bangor)\n\nSoil water content and loss on ignition (LOI). Soil initially dried at 25 degrees Celsius for 14 days, followed by weight a 10 gram subsample into a crucible and put into an oven at 105 degrees Celsius for 24 hours, the weight loss provides the soil water content. The same crucible with the dry soil is introduced into a Carbolite furnace at 375 degrees Celsius for 16 hours, this second weight loss is quantified and reported as Loss on ignition (LOI). (CEH Bangor)\n\npH and electrical conductivity (EC). In a beaker we add 25ml deionised water into 10g field moist soil; we allowed 30 minutes equilibration time with stirring at time=0 and 15 minutes, we measure pH using Corning 220 pH meter, VWR combination electrode 662-1805. EC is measured after pH in the same beaker using a Jenway 4510 with a 662-1805 electrode. pH in CaCl2 is measured after EC following addition of 2 mL 0.125 mole (M) Calcium Chloride (CaCl2). (CEH Bangor)\n\nPermanganate oxidizable carbon (POXC). We manually quartered 2.5g of soil subsample and analyse for POXC using 0.2M KMnO4 following the method described in Weil et al., 2003. (CEH Bangor)\n\nCitrate-P. We manually quarter 0.5 grams of soil and analyse for citrate extractable phosphorous following the method described in DeLuca et al. (2015). (CEH Bangor)\n\nAggregate size distribution.  We sieved about 1 gram of air-dry soil through a stack of 2 mm and 1 mm sieves, the fraction collected into the 1 mm sieve was introduced into a Beckman-Coulter LS 13320 laser diffraction particle size analyser and measured for the size distribution. (CEH Bangor)\n\nTotal carbon and nitrogen was measured on a Vario EL which uses oxidative combustion followed by thermal conductivity detection (CEH Lancaster).\n\nTotal phosphorus was measured at CEH Lancaster. Total phosphorus is digested with a H2O2/Sulphuric Acid (H2SO4) based digestion reagent mix (along with selenium and lithium sulphate) and subsequent colorimetric analysis carried out on a Seal discrete analyser (CEH Lancaster).\n\nAll results were entered into Excel spreadsheets providing individual datasets for each set of N parameters. Data were exported from Excel as .csv files for ingestion into the EIDC.","locations":["POLYGON((-4.022 50.767, -4.022 53.241, -3.892 53.241, -3.892 50.767, -4.022 50.767))"],"metadataDate":"2026-06-29T16:48:30.000Z","orcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0001-8610-9717","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0003-2869-0616","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0002-2713-4389"],"organisation":["Centre for Ecology & Hydrology","Bangor University","Rothamsted Research","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre","UK Centre for Ecology & Hydrology"],"publicationDate":"2019-04-26T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/90df9dfa-a0c8-4ead-a13d-0a0a13cda7ab","10.5285/90df9dfa-a0c8-4ead-a13d-0a0a13cda7ab","doi:10.5285/90df9dfa-a0c8-4ead-a13d-0a0a13cda7ab"],"resourceType":"Dataset","ror":["https://ror.org/00pggkr55","https://ror.org/006jb1a24","https://ror.org/051h34p92","https://ror.org/04xw4m193"],"shortenedDescription":"The data consist of soil physicochemical and biological data for three soil depths (0-15, 15-30 and 30-60 cm) from a winter wheat field experiment located at two research sites in the United Kingdom. Soil samples were collected between April 2017 and August 2017. Extractions…","state":"published","supplementalDescription":["Miranda, K.M., Espey, M.G., & Wink, D.A. (2001). A Rapid, Simple Spectrophotometric Method for Simultaneous Detection of Nitrate and Nitrite. Nitric Oxide, 5(1), 62–71. https://doi.org/10.1006/niox.2000.0319","Islam, K.R., Stine, M.A., Gruver, J.B., Samson-Liebig, S.E., & Weil, R.R. (2003). Estimating active carbon for soil quality assessment: A simplified method for laboratory and field use. American Journal of Alternative Agriculture, 18(1), 3–17.","DeLuca, T.H., Glanville, H.C., Harris, M., Emmett, B.A., Pingree, M.R.A., de Sosa, L.L., … Jones, D.L. (2015). A novel biologically-based approach to evaluating soil phosphorus availability across complex landscapes. Soil Biology and Biochemistry, 88, 110–119."],"supplementalName":["Centre for Improved Nitrogen Agronomy project website"],"title":"Soil chemical and physical properties from a digestate (winter wheat trial) experiment at North Wyke and Henfaes Farm, UK (2017)","version":1.0,"view":["public","danor"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute"],"authorFamilyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"authorFullName":["Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"authorGivenName":["L.J.","K.","G.","F.","D. E. L.","R.","B. V."],"authorOrcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03rzp5127"],"availability":"Available","catalogue":"eidc","dataFormat":["TIFF","GeoPackage"],"description":"This dataset maps the risks of Phytophthora ramorum infection for 47587 fragments of Heather heathland (UKCEH Landcover Map class H9) and 74869 fragments of Heather grassland (UKCEH Landcover Map class H10). Fragment risk scores integrate climate suitability for P. ramorum (using pathogen-specific temperature-dependent growth curves and a relative humidity threshold), proximity to Larch/infected Larch within 500m or 5000m, proximity to other (non-Larch) wider environment infections within 1500m, habitat suitability within the fragment for sporulating hosts (Vaccinium myrtillus, V. vitis-idaea, Acrostaphylos uva-versi) and the reservoir host Rhododendron ponticum, proximity to inspected premises with confirmed infections and the presence of water courses. The maximum possible risk score for heathland fragments across all risk factors was 11.5, but in practice the maximum assigned for any fragment was 10.5 for Heather (H9) and 11 for Heather grassland (H10). Fragments were also classified as low, medium or high risk (overall_risk_as_range).","documentType":"GEMINI_DOCUMENT","familyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"fullName":["Louise Barwell","Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"funder":["Natural Environment Research Council","Scotland's Plant Health Centre","Department for Environment Food and Rural Affairs"],"givenName":["L.J.","K.","G.","F.","D. E. L.","R.","B. V."],"grant":["NE/V019813/1","PHC2023/02","TH12224FR10"],"identifier":"00601c2a-ac86-467d-8696-689cf20e35d3","incomingCitationCount":0,"keyword":["Scotland","Environmental risk","exotic species","habitat","pathogenic organism","pest","phytopathology","Phytophthora ramorum","risk assessment","heathland"],"keywordsOther":["exotic species","habitat","pathogenic organism","pest","phytopathology","Phytophthora ramorum","risk assessment","heathland"],"keywordsPlace":["Scotland"],"keywordsTheme":["Environmental risk"],"licence":"Open government licence","lineage":"We employed an iterative and collaborative co-production process that brought together stakeholders with diverse expertise from across Scotland’s plant health sector, including forestry, conservation, horticulture, and government agencies to co-design the risk framework. Heathland fragments in Scotland were identified using the Land Cover Map 2023 (land parcels, GB). Risks were scored separately for the two classes of heathland defined in the LCM. Heathland 9 relates to LCM Class ‘Heather’ (>25% cover Heather) and heathland 10 is Heather grassland (≤25% cover heather). Key risk factors for P. ramorum infection and their scoring were agreed with 15 cross-sectoral stakeholders through a self-completion survey and two workshops. The previous risk analysis for P. ramorum risks to heathland fragments has been updated to include new P. ramorum detection data in Larch woodlands and inspected premises provided by Scottish Forestry and SASA. New climate suitability models for P. ramorum growth are used. The risk scoring has been adjusted to reduce the emphasis on proximity to inspected premises as a pathway of spread, reflecting stakeholder perspectives on improved biosecurity practices in trade. The scored fragment data were intersected with the boundaries of local authorities, terrestrial protected areas, and P. ramorum policy zones to summarise the distribution of risks across regions in Scotland.\n\nThe final report was peer reviewed by the Plant Health Centre. In addition, a knowledge integration and validation workshop (November 13, 2024) examined the adequacy of the outputs for horizon scanning and decision-making across sectors. Validation of the climate suitability models for P. ramorum has been attempted using independent UK and European detections. This spatial risk framework cannot yet be fully validated until future detections are available, because previous detections are used within the model and are not independent of the risk scores assigned. Previous risk frameworks were cross-validated against subsequent, independent P. ramorum detections, as proof of concept.","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T18:12:17.000Z","orcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-09-19T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/00601c2a-ac86-467d-8696-689cf20e35d3","10.5285/00601c2a-ac86-467d-8696-689cf20e35d3","doi:10.5285/00601c2a-ac86-467d-8696-689cf20e35d3"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset maps the risks of Phytophthora ramorum infection for 47587 fragments of Heather heathland (UKCEH Landcover Map class H9) and 74869 fragments of Heather grassland (UKCEH Landcover Map class H10). Fragment risk scores integrate climate suitability for P.…","state":"published","title":"Spatial risk analysis for Phytophthora ramorum infection in heathland fragments in Scotland","topic":["0/Environmental risk/"],"version":1.0,"view":["public","tinzha"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute"],"authorFamilyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"authorFullName":["Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"authorGivenName":["L.J.","K.","G.","F.","D.E.L.","R.","B.V."],"authorOrcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03rzp5127"],"availability":"Available","catalogue":"eidc","dataFormat":["TIFF","GeoPackage"],"description":"This dataset maps the potential vulnerability to Phytophthora pinifolia infection for 82 core fragments of the Caledonian Pinewood Inventory (CPI) in Scotland. Fragment risk scores integrate climate suitability for pathogen growth, proximity to other pine fragments and inspected premises and recent planting under forestry grant schemes. Data and models used to assess risks are variable in their time frames, but are broadly representative of the period from 2013 to 2023. The risk maps for Caledonian Pine assess the vulnerability of CPI fragments, if P. pinifolia were to arrive, and the most probable areas of introduction and establishment. P. pinifolia has not been detected in the UK but is on the UK Plant Health Risk Register. All known host species are within the genus Pinus, either recorded as naturally occurring disease affecting the shoots and needles of Pinus radiata, or established through pathogenicity trials on other species within the genus, albeit with varying levels of susceptibility. The only known source region for the pathogen is Chile. P. pinifolia has been ranked 8th among Phytophthora species mostly likely to arrive among the 109 Phytophthora species assessed, with this higher risk predominantly driven by the model component describing climatic similarity between forest, agricultural and urban habitats in Chile and the UK. A Rapid Pest Risk Analysis for P. pinifolia considered it unlikely to enter the UK due to restrictions on import of living pine species from non-EU countries, though transport may still be possible with other, unknown, hosts.","documentType":"GEMINI_DOCUMENT","familyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"fullName":["Louise Barwell","Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"funder":["Natural Environment Research Council"],"givenName":["L.J.","K.","G.","F.","D.E.L.","R.","B.V."],"grant":["NE/V019813/1"],"identifier":"ddee75ae-2ad0-4d16-81a9-20928d89e872","incomingCitationCount":1,"keyword":["Scotland","Environmental risk","exotic species","forest pest","forestry","habitat","pathogenic organism","phytopathology","risk assessment"],"keywordsOther":["exotic species","forest pest","forestry","habitat","pathogenic organism","phytopathology","risk assessment"],"keywordsPlace":["Scotland"],"keywordsTheme":["Environmental risk"],"licence":"Open government licence","lineage":"We employed an iterative and collaborative co-production process that brought together stakeholders with diverse expertise from across Scotland's plant health sector including forestry, conservation, horticulture, and government agencies. Risk factors and their scoring were agreed with 15 cross-sectoral stakeholders through a self-completion survey and two workshops. Overall risk scores integrate climate suitability (using pathogen-specific temperature-dependent growth curves and relative humidity thresholds), with proximity to other pine fragments, inspected premises and planting under forestry grant schemes. As agreed in the first workshop, climate suitability was given the greatest weight in the scoring of the risk factors. Due to the absence of any P. pinifolia detections in the UK, the spatial risk frameworks exclude proximity to infected areas. The final report was peer reviewed by the Plant Health Centre. In addition, a knowledge integration and validation workshop (November 13, 2024) examined the adequacy of the outputs for horizon scanning and decision-making across sectors. Validation of pathogen-specific climate suitability models has been attempted for other Phytophthora species using independent UK and European detections, but is not possible for P. pinifolia as the pathogen has not been detected in Europe.","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T17:26:41.000Z","orcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-10-22T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/ddee75ae-2ad0-4d16-81a9-20928d89e872","10.5285/ddee75ae-2ad0-4d16-81a9-20928d89e872","doi:10.5285/ddee75ae-2ad0-4d16-81a9-20928d89e872"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset maps the potential vulnerability to Phytophthora pinifolia infection for 82 core fragments of the Caledonian Pinewood Inventory (CPI) in Scotland. Fragment risk scores integrate climate suitability for pathogen growth, proximity to other pine fragments…","state":"published","title":"Spatial risk analysis for Phytophthora pinifolia infection of Caledonian Pinewood Inventory fragments in Scotland","topic":["0/Environmental risk/"],"version":1.0,"view":["public","tinzha"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute"],"authorFamilyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"authorFullName":["Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"authorGivenName":["L. J.","K.","G.","F.","D.E.L.","R.","B. V."],"authorOrcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03rzp5127"],"availability":"Available","catalogue":"eidc","dataFormat":["TIFF"],"description":"This dataset is a ranked list of risks to Scotland from 196 Phytophthora species, including most of the approximately 240 formally described or provisionally named species in the genus globally. Arrival and establishment risks are scored and joined with information on surveillance of known hosts within inspected premises in Scotland (introduction risks). Potential impacts are scored using information on global Phytophthora-host interactions extracted from a global database of Phytophthora records to identify at risk hosts and score the level of threat to hosts and habitats within Scotland. The ranked list was developed to support prioritisation among future Phytophthora threats to Scotland. All risks were scored by the UKCEH project team, informed by a self-completion survey and two workshops with 15 stakeholders from across Scotland's plant health sector, including forestry, conservation, horticulture, and government agencies.","documentType":"GEMINI_DOCUMENT","familyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"fullName":["Louise Barwell","Barwell, L.J.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"funder":["Natural Environment Research Council","Scotland's Plant Health Centre","Department for Environment Food and Rural Affairs"],"givenName":["L.","L. J.","K.","G.","F.","D.E.L.","R.","B. V."],"grant":["NE/V019813/1","PHC2023/02","TH12224FR10"],"identifier":"72e8f817-01a6-42d2-b187-a5ebf43853a1","incomingCitationCount":1,"keyword":["Environmental risk","Scotland","pathogenic organism","pest","risk assessment","exotic species","environmental impact","forestry","habitat","biodiversity"],"keywordsOther":["Scotland","pathogenic organism","pest","risk assessment","exotic species","environmental impact","forestry","habitat","biodiversity"],"keywordsTheme":["Environmental risk"],"licence":"Open government licence","lineage":"To develop a ranked list of threats to Scotland from Phytophthora species we joined predictions from new models of probability of arrival into the UK through trade (Barwell et al. 2025), and current climate suitability for establishment in 342 pixels (approximately 15x15 km grid) in Scotland (Green et al. 2024). These were integrated with information on Phytophthora distributions, host associations and interceptions extracted from a global database of Phytophthora records. Potential impacts on Scotland's priority plants and habitats were assessed through scoring the number of susceptible host genera on Scotland's Biodiversity List, and within NVC habitats and National Forest Estate Subcompartments in Scotland.  Each risk metric was scored from 0 (low risk) to 3 (high risk) and these scores were summed to produce an overall risk score for each Phytophthora species. Some species are missing scores for climate suitability in Scotland  (n=37) or UK arrival risk (n=89) due to the absence of data on source regions or thermal tolerance traits to inform the underlying models. \n\nThe final report (L. J. Barwell, G. Amankwaa, F. Asaaga, K. Turvey, D. E. L. Cooke, R. Mitchell, & B. V. Purse (2025). Improved preparedness for Phytophthora prevention in Scotland: Project Final Report. PHC2023/02. Scotland's Centre of Expertise for Plant Health (PHC). https://www.planthealthcentre.scot/projects/improved-preparedness-Phytophthora-prevention-scotland) was peer-reviewed by Scotland’s Plant Health Centre. Underlying models of pathogen-specific climate suitability have been evaluated against independent detection data in the UK and Europe where available. Arrival risk models integrating trade flows from source regions and pathogen traits explained up to 78% (61.8, 84.6) of variance in the probability of a new detections since 2005 across Phytophthora species globally. Interceptions and host associations were derived from a global cross-sectoral database compiling information from multiple data providers and sectors to capture the broadest picture possible of Phytophthora host use and prevalence. Where possible, pathologists validated the records and rankings against their knowledge of pathogen behaviour. \n\nHowever, users of the list should be mindful that not all Phytophthora species are  included in the ranking presented here due to lack of knowledge on their distributions and hosts, and that a considerable proportion of global Phytophthora diversity may be unknown to science. Some of the most impactful Phytophthora species were only described after their emergence in regions that were likely outside of their native range and with unknown source regions. Moreover, quantitative metrics capturing the severity of interactions (e.g. pathogenicity) between Phytophthora species and their hosts are only available for a fraction of the host-pathogen interactions captured in our data and are not considered within the qualitative ranking presented here.","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T17:12:01.000Z","orcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-09-19T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/72e8f817-01a6-42d2-b187-a5ebf43853a1","10.5285/72e8f817-01a6-42d2-b187-a5ebf43853a1","doi:10.5285/72e8f817-01a6-42d2-b187-a5ebf43853a1"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset is a ranked list of risks to Scotland from 196 Phytophthora species, including most of the approximately 240 formally described or provisionally named species in the genus globally. Arrival and establishment risks are scored and joined with information…","state":"published","supplementalDescription":["Final report"],"supplementalName":["L. J. Barwell, G. Amankwaa, F. Asaaga, K. Turvey, D. E. L. Cooke, R. Mitchell, & B. V. Purse (2025)."],"title":"Ranked current and anticipated threats to Scotland from global Phytophthora species","topic":["0/Environmental risk/"],"version":1.0,"view":["public","tinzha"]},{"authorAffiliation":["Bangor University","Rothamsted Research","Centre for Ecology & Hydrology"],"authorFamilyName":["Sánchez-Rodríguez","Carswell","Cotton","Chadwick","Jones","Misselbrook","Saunders","Reinsch"],"authorFullName":["Sánchez-Rodríguez, A.R.","Carswell, A.M.","Cotton, J.M.","Chadwick, D.R.","Jones, D.L.","Misselbrook, T.H.","Saunders, K.S.","Reinsch, S."],"authorGivenName":["A.R.","A.M.","J.M.","D.R.","D.L.","T.H.","K.S.","S."],"authorOrcid":["https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0003-4649-0677"],"authorRor":["https://ror.org/006jb1a24","https://ror.org/0347fy350","https://ror.org/00pggkr55"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The data contains nitrogen (N) offtake, N emissions (ammonia and nitrous oxide), soil parameters (pH, EC, NH4+, NO3−), biomass and grain production from a winter wheat field experiment located at Bangor University (Henfaes Research Station in North Wales) and Rothamsted Research (North Wyke (NW) in Devon). Data were collected between  April 2017 and August 2017. Measurements and soil and plant samples were taken from 45 plots in a randomized complete block design. Sixteen extra mini-plots at the prevailing wind (south westerly) edge of the experiment site were used at NW for NH3 volatilization measurements. The treatments were control (C, without N application), food based digestate (D), food based digestate + the nitrification inhibitor 3,4-dimethylpyrazole (DMPP; D+NI), acidified food based digestate (AD), acidified food based digestate + the nitrification inhibitor 3,4-dimethylpyrazole (DMPP; AD+NI). Four rates of ammonium nitrate (NH4NO3; 75, 150, 225 and 300 kg N ha−1)  were applied to compare yields and fertilizer replacement rate of the digestate treatments (targeted at 190 kg N  ha−1). Soil pH, soil electrical conductivity (EC), soil NH4+ and soil NO3−, NH3 volatilization, N2O emissions were measured periodically for C, D, D+NI, AD and AD+NI and nitrogen concentration in grain and straw, grain yield and plant biomass for all treatments.\n\nNitrogen offtake, losses and fluxes were used to determine the N use efficiency (NUE) and fertilizer replacement rate of the digestate treatments.\n\nMeasurements were undertaken by members of staff from Bangor University, School of Environment, Natural Resources & Geography and Rothamsted Research, Sustainable Agricultural Sciences – North Wyke.\n\nData was collected for the Newton Fund project “UK-China Virtual Joint Centre for Improved Nitrogen Agronomy”. Funded by Biotechnology and Biological Sciences Research Council (BBSRC) and NERC -  Ref BB/N013468/1","documentType":"GEMINI_DOCUMENT","familyName":["Reinsch","Sánchez-Rodríguez","Carswell","Cotton","Chadwick","Jones","Misselbrook","Saunders"],"fullName":["Reinsch, S.","Sánchez-Rodríguez, A.R.","Carswell, A.M.","Cotton, J.M.","Chadwick, D.R.","Jones, D.L.","Misselbrook, T.H.","Saunders, K.S."],"funder":["Biotechnology and Biological Sciences Research Council"],"givenName":["S.","A.R.","A.M.","J.M.","D.R.","D.L.","T.H.","K.S."],"grant":["BB/N013468/1"],"identifier":"836dfb2e-bc6f-47d2-b924-8261be671391","incomingCitationCount":0,"keyword":["CINAg","CENTRE FOR IMPROVED NITROGEN AGRONOMY","Land use","Soil","Agriculture","nitrification inhibitor","digestate","Nitrogen use efficiency (NUE)","nitrogen","fertiliser","nitrification","winter wheat"],"keywordsOther":["nitrification inhibitor","digestate","Nitrogen use efficiency (NUE)","nitrogen","fertiliser","nitrification","winter wheat"],"keywordsProject":["CINAg","CENTRE FOR IMPROVED NITROGEN AGRONOMY"],"keywordsTheme":["Land use","Soil","Agriculture"],"licence":"Open government licence","lineage":"Cumulative ammonia (NH3) emissions were measured using a wind tunnel technique (with 0.02 M H3PO4 acid traps) at a daily resolution for seven days following digestate application, except the first day where NH3 volatilization was measured twice at Henfaes Farm and three times at North Wyke.\n\nNitrous oxide emissions were measured using a combination of static manual and static automatic (combined with an Isotopic  Nitrous Oxide (N2O) Analyser, Los Gatos Research Inc. San Jose, CA, USA) chambers at Henfaes Farm, and only static manual chambers at North Wyke. Using the manual static chambers, the resolution of Nitrous Oxide (N2O) measurements following Nitrogen (N) fertiliser application was 3 x weekly for weeks 1 and 2, 2 x weekly for weeks 3 and 4, and 1 x weekly thereafter. Using the automatic static chambers, the resolution of N2O measurements following N fertiliser application was approximately every six hours.\n\nSamples for soil ammonium (NH4+) and nitrate (NO3−) analyses were collected at the same temporal resolution as the N2O sampling using manual static chambers.\n\nWinter wheat yield and biomass measurements were done the day of harvest (fresh weight) and subsamples were used to determine grass and grain moisture after 24 hours at 80 degrees Celsius.\n\nAll results were entered into Excel spreadsheets providing individual datasets for each set of N parameters. Data were exported from Excel as .csv files for ingestion into the EIDC.","locations":["POLYGON((-4.022 50.767, -4.022 53.241, -3.892 53.241, -3.892 50.767, -4.022 50.767))"],"metadataDate":"2026-06-29T16:16:29.000Z","orcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0002-4594-3606"],"organisation":["UK Centre for Ecology & Hydrology","Bangor University","Rothamsted Research","Centre for Ecology & Hydrology","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre"],"publicationDate":"2019-04-25T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/836dfb2e-bc6f-47d2-b924-8261be671391","10.5285/836dfb2e-bc6f-47d2-b924-8261be671391","doi:10.5285/836dfb2e-bc6f-47d2-b924-8261be671391"],"resourceType":"Dataset","ror":["https://ror.org/00pggkr55","https://ror.org/006jb1a24","https://ror.org/0347fy350","https://ror.org/04xw4m193"],"shortenedDescription":"The data contains nitrogen (N) offtake, N emissions (ammonia and nitrous oxide), soil parameters (pH, EC, NH4+, NO3−), biomass and grain production from a winter wheat field experiment located at Bangor University (Henfaes Research Station in North Wales) and Rothamsted…","state":"published","supplementalDescription":["Project website"],"supplementalName":["THE UK-CHINA VIRTUAL JOINT CENTRE FOR IMPROVED NITROGEN AGRONOMY (CINAG)"],"title":"Greenhouse gas emissions, nitrogen use efficiency and biomass from digestate experiments on winter wheat at North Wyke and Henfaes, UK (2017)","topic":["0/Land use/","0/Soil/","0/Agriculture/"],"version":1.0,"view":["public","danor"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute"],"authorFamilyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"authorFullName":["Barwell, L.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"authorGivenName":["L.","K.","G.","F.","D. E. L.","R.","B. V."],"authorOrcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03rzp5127"],"availability":"Available","catalogue":"eidc","dataFormat":["TIFF","GeoPackage"],"description":"This dataset maps the risks of Phytophthora ramorum infection for 79062 larch fragments identified in Scotland, of which 79060 were assigned a risk score. Two fragments without climate and/or habitat suitability scores were excluded. Fragment risk scores integrate multiple risk factors. The primary risk factor is climate suitability for P. ramorum using pathogen-specific temperature-dependent growth curves and a relative humidity threshold. Other risk factors integrated are proximity to larch/infected larch within 500m or 5000m and other (non-Larch) wider environment infections within 1500m. Presence of alternative hosts are scored using habitat suitability within the fragment for sporulating hosts (Vaccinium myrtillus, V. vitis-idaea, Acrostaphylos uva-versi) and the reservoir host Rhododendron ponticum. Additionally, proximity to inspected premises with confirmed infections and the presence of water courses are also assessed. The maximum possible risk score for a larch fragment is 12. Fragments were also classified as low, medium or high risk. ","documentType":"GEMINI_DOCUMENT","familyName":["Barwell","Turvey","Amankwaa","Asaaga","Cooke","Mitchell","Purse"],"fullName":["Louise Barwell","Barwell, L.","Turvey, K.","Amankwaa, G.","Asaaga, F.","Cooke, D.E.L.","Mitchell, R.","Purse, B.V."],"funder":["Natural Environment Research Council","Scotland's Plant Health Centre","Department for Environment Food and Rural Affairs"],"givenName":["L","L.","K.","G.","F.","D. E. L.","R.","B. V."],"grant":["NE/V019813/1","PHC2023/02","TH12224FR10"],"identifier":"f6809e00-91cb-494d-babd-5d60d938ad97","incomingCitationCount":1,"keyword":["Environmental risk","Phytophthora ramorum","Larch","Scotland","forestry","exotic species","habitat","pathogenic organism","pest","phytopathology","risk assessment"],"keywordsOther":["Phytophthora ramorum","Larch","Scotland","forestry","exotic species","habitat","pathogenic organism","pest","phytopathology","risk assessment"],"keywordsTheme":["Environmental risk"],"licence":"Open government licence","lineage":"We employed an iterative and collaborative co-production process that brought together stakeholders with diverse expertise from across Scotland’s plant health sector, including forestry, conservation, horticulture, and government agencies to co-design the risk framework. Larch fragments in Scotland were compiled from the National Forest Estate Sub-compartments Scotland 2019, the Native Woodland Survey of Scotland, survey data, Statutory Plant Health Notices and larch layers from Scottish Forestry, and a Phytophthora database. Any areas felled since 2013 were identified and removed using the National Forest Inventory GB from 2013 to 2023 and completed Statutory Plant Health Notices. Key risk factors and their scoring were agreed with 15 cross-sectoral stakeholders through a self-completion survey and two workshops. The risk scoring has been adjusted to reduce the emphasis on proximity to inspected premises as a pathway of spread, reflecting stakeholder perspectives on improved biosecurity practices in trade.  The previous risk analysis for P. ramorum infection for Scotland’s larch fragments (https://doi.org/10.5285/29726cda-09f5-4661-8fd4-ddaa5555466a) has been updated to reflect the removal of larch since 2013 through Statutory Plant Health Notices and other clear-felling, to include new P. ramorum detection data in larch woodlands and inspected premises provided by Scottish Forestry and SASA. In addition, new climate suitability models of pathogen growth are used to score risk of establishment and new species distribution models have been used to score risks of transmission from alternative host species of P. ramorum. The scored fragment data were intersected with the boundaries of local authorities, Scottish Forestry Conservancies, and P. ramorum policy zones to summarise the distribution of risks across regions in Scotland.\n\nThe final report was peer reviewed by the Plant Health Centre. In addition, a knowledge integration and validation workshop (November 13, 2024) examined the adequacy of the outputs for horizon scanning and decision-making across sectors. Validation of the climate suitability models for P. ramorum has been attempted using independent UK and European detections for P. ramorum. This spatial risk framework cannot yet be fully validated until future detection data are available, because previous detections are used within the model and are not independent of the risk scores assigned. However, the previous risk framework for Larch has been cross-validated against subsequent, independent P. ramorum detections, as proof of concept.","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T18:31:34.000Z","orcid":["https://orcid.org/0000-0002-1643-1046","https://orcid.org/0009-0001-2611-3391","https://orcid.org/0000-0003-0334-5867","https://orcid.org/0000-0003-2675-9464","https://orcid.org/0000-0002-9154-7954","https://orcid.org/0000-0001-8151-2769","https://orcid.org/0000-0001-5140-2710"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","NERC EDS Environmental Information Data Centre"],"publicationDate":"2025-10-17T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/f6809e00-91cb-494d-babd-5d60d938ad97","10.5285/f6809e00-91cb-494d-babd-5d60d938ad97","doi:10.5285/f6809e00-91cb-494d-babd-5d60d938ad97"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset maps the risks of Phytophthora ramorum infection for 79062 larch fragments identified in Scotland, of which 79060 were assigned a risk score. Two fragments without climate and/or habitat suitability scores were excluded. Fragment risk scores integrate multiple…","state":"published","title":"Spatial risk analysis for Phytophthora ramorum infection in Larch fragments in Scotland","topic":["0/Environmental risk/"],"version":1.0,"view":["public","tinzha"]},{"authorAffiliation":["Centre for Ecology & Hydrology","Unaffiliated","Bangor University","Rothamsted Research"],"authorFamilyName":["Reinsch","Carswell","Cowan","Lebron","Sánchez-Rodríguez","Barrett","Carter","Chadwick","Cotton","Guyatt","Harvey","Hunt","Jones","Keenan","Lawlor","Marshall","Misselbrook","Patel","Pereira","Saunders","Shaw","Skiba","Tanna","Thompson","Emmett"],"authorFullName":["Reinsch, S.","Carswell, A.M.","Cowan, N.J.","Lebron, I.","Sánchez-Rodríguez, A.R.","Barrett, G.","Carter, H.T.","Chadwick, D.R.","Cotton, J.M.","Guyatt, H.J.","Harvey, R.","Hunt, A.","Jones, D.L.","Keenan, P.O.","Lawlor, A.J.","Marshall, M.R.","Misselbrook, T.H.","Patel, M.","Pereira, M.G.","Saunders, K.S.","Shaw, R.","Skiba, U.M.","Tanna, B.","Thompson, N.","Emmett, B.A."],"authorGivenName":["S.","A.M.","N.J.","I.","A.R.","G.","H.T.","D.R.","J.M.","H.J.","R.","A.","D.L.","P.O.","A.J.","M.R.","T.H.","M.","M.G.","K.S.","U.M.","B.","N.","B.A."],"authorOrcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0001-8610-9717","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0003-2869-0616","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0001-8659-6092","https://orcid.org/0000-0002-2713-4389"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/006jb1a24","https://ror.org/0347fy350"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The data consist of soil physicochemical and biological data for three soil depths (0-15, 15-30 and 30-60 cm) from a three-cut silage plot trial located at three grassland sites within the UK collected between April 2016 and October 2016. The sites were Rothamsted Research at North Wyke in Devon, Bangor University at Henfaes Research Station in North Wales, and Easter Bush in Scotland.\n\nAt each site measurements were taken from sixteen plots, organised within a randomised complete block design: four (control) plots did not receive fertilizer, four plots received urea only,  four plots received urea and urea-inhibitors, and four plots received ammonium-nitrate (Nitram). Fertiliser was applied three times and three cuts were performed. All parameters were measured following fertiliser application. Samples were taken before fertilizer additions at peak growth and before the last silage cut.\n\nSoil physical parameters were: aggregate size distribution, aggregate stability, texture (sand/silt/clay) and soil moisture. Soil chemical parameters were: soil nitrate and ammonium, dissolved organic carbon and nitrogen, amino acids and peptides, soil organic matter content as loss-on-ignition, pH, sodium, potassium, calcium, magnesium, permanganate oxdisable carbon, citric acid extractable phosphorous, Olsen-P and total carbon, nitrogen and phosphorus. Soil biological measures were: microbial biomass, carbon and nitrogen. \n\nMicrobial community composition and nitrogen genes were measured on the same soil samples and are presented in a separate dataset (https://doi.org/10.5285/59f81d41-a789-4c5c-8ab8-36baa7ac2c55)\n\nMeasurements were undertaken by members of staff from the Centre of Ecology & Hydrology (Bangor, Edinburgh, Lancaster, Wallingford), Bangor University, School of Environment, Natural Resources & Geography and Rothamsted Research, Sustainable Agricultural Sciences, North Wyke.\n\nData was collected for the Newton Fund project \"UK-China Virtual Joint Centre for Improved Nitrogen Agronomy\". Funded by Biotechnology and Biological Sciences Research Council (BBSRC) and NERC -  Ref BB/N013468/1","documentType":"GEMINI_DOCUMENT","familyName":["Reinsch","Carswell","Cowan","Lebron","Sánchez-Rodríguez","Barrett","Carter","Chadwick","Cotton","Guyatt","Harvey","Hunt","Jones","Keenan","Lawlor","Marshall","Misselbrook","Patel","Pereira","Saunders","Shaw","Skiba","Tanna","Thompson","Emmett"],"fullName":["Reinsch, S.","Carswell, A.M.","Cowan, N.J.","Lebron, I.","Sánchez-Rodríguez, A.R.","Barrett, G.","Carter, H.T.","Chadwick, D.R.","Cotton, J.M.","Guyatt, H.J.","Harvey, R.","Hunt, A.","Jones, D.L.","Keenan, P.O.","Lawlor, A.J.","Marshall, M.R.","Misselbrook, T.H.","Patel, M.","Pereira, M.G.","Saunders, K.S.","Shaw, R.","Skiba, U.M.","Tanna, B.","Thompson, N.","Emmett, B.A."],"funder":["Biotechnology and Biological Sciences Research Council"],"givenName":["S.","A.M.","N.J.","I.","A.R.","G.","H.T.","D.R.","J.M.","H.J.","R.","A.","D.L.","P.O.","A.J.","M.R.","T.H.","M.","M.G.","K.S.","U.M.","B.","N.","B.A."],"grant":["BB/N013468/1"],"identifier":"7a87dde4-b54e-49b0-8751-1d59e8aebb90","incomingCitationCount":0,"keyword":["CENTRE FOR IMPROVED NITROGEN AGRONOMY (CINAG)","Soil","Grassland","grassland","fertiliser","nitrogen","Urease inhibitor","soil"],"keywordsOther":["Grassland","grassland","fertiliser","nitrogen","Urease inhibitor","soil"],"keywordsProject":["CENTRE FOR IMPROVED NITROGEN AGRONOMY (CINAG)"],"keywordsTheme":["Soil"],"licence":"Open government licence","lineage":"Soil samples were taken by members of the North Wyke, Easter Bush and Henfaes farm sites. At North Wyke and Henfaes farm, staff from CEH Bangor helped taking the samples. Two sets of soil cores were taken. One core was sent in cooling boxes on ice to CEH Bangor for measuring soil physicochemical properties. The second set was send to Rothamsted Research Harpenden for the analysis of nitrogen genes and microbial community composition (related dataset). The topsoil 0-15 cm were taken with the same type of corer across the sites, samples below 15 cm soil depth were sampled with corers available at the sites. Samples were wet sieved to 5 mm by staff from Bangor University and CEH Bangor. Subsamples of these were analysed for physicochemical and biological parameters.\n\nNitrate (NO3‒), Ammonium (NH4+) ,Dissolved Organic Carbon (DOC), Dissolved Organic Nitrogen (DON), amino acids, peptides and proteins: extraction with 0.5 M potassium sulphate (K2SO4), 5 g soil and 25 ml extractant, after sieving through 5 mm. The supernatant was stored at −20 degrees Celsius until analyses. (Bangor University)\n\nTotal dissolved organic carbon (DOC) and total dissolved N (TDN) were measured using a Multi N/C 2100/2100 analyser (AnalytikJena AG, Jena, Germany). Dissolved organic N (DON) was calculated by subtracting NH4+ and NO3− from the TDN value. (Bangor University)\n\nAmmonium in the supernatant was determined colorimetrically using the salicylate method of Mulvaney (1996) and NO3− following the salicylate method of Miranda et al. (2001) in an Epoch® microplate spectrophotometer (Bio Tek Instruments Inc., Winooski, VT). (Bangor University)\n\nMicrobial biomass carbon and nitrogen were calculated in a similar way than DOC and DON but the 5 grams of soil were kept for 7 days in a desiccator with chloroform (to kill the microorganisms). The difference between DOC, DON after these 7 days (and after extraction as explained before) and the initial values (calculated in the previous paragraph) between 0.45 for microbial C and 0.54 for microbial N were microbial C and microbial N, respectively. (Bangor University)\n\nAmino acids and peptides were measured using a Cary Eclipse Fluorescence Spectrophotometer with a ProStar Solvent Delivery Module (Varian, USA). (Bangor University)\nTexture. Particle size distribution was measured using a Beckman-Coulter LS 13320 laser diffraction particle size analyser.  We manually quarter 0.5 g subsample from the soil, remove organic matter using Hydrogen peroxide (H2O2) and transfer the sample into 250 mL bottle, we added 5 mL of 5 percent Calgon and shaked overnight. The entire contents of the bottle was introduced to the laser analyser for measuring particles size distribution. (CEH Bangor)\n\nSoil water content and loss on ignition (LOI). Soil initially dried at 25 degrees Celsius for 14 days, followed by weight a 10 gram subsample into a crucible and put into an oven at 105 degrees Celsius for 24 hours, the weight loss provides the soil water content. The same crucible with the dry soil is introduced into a Carbolite furnace at 375 degrees Celsius for 16 hours, this second weight loss is quantified and reported as loss on ignition (LOI). (CEH Bangor)\n\npH and electrical conductivity (EC). In a beaker we added 25ml deionised water into 10g field moist soil; we allowed 30 minutes equilibration time with stirring at time=0 and 15 minutes, we measured pH using Corning 220 pH meter, VWR combination electrode 662-1805. EC is measured after pH in the same beaker using a Jenway 4510 with a 662-1805 electrode. pH in CaCl2 is measured after EC following addition of 2 mL 0.125 moles (M) Calcium Chloride (CaCl2). (CEH Bangor)\n\nPermanganate oxidizable carbon (POXC). We manually quarter 2.5g of soil subsample and analyse for POXC using 0.2M KMnO4 following the method described in Weil et al., 2003. (CEH Bangor)\n\nCitrate-P. We manually quarter 0.5 grams of soil and analyse for citrate extractable phosphorous following the method described in DeLuca et al. (2015). (CEH Bangor)\n\nAggregate size distribution.  We sieved about 1 gram of air-dry soil through a stack of 2 mm and 1 mm sieves, the fraction collected into the 1 mm sieve was introduced into a Beckman-Coulter LS 13320 laser diffraction particle size analyser and measured for the size distribution. (CEH Bangor)\n\nTotal carbon and nitrogen was measured on a Vario EL which uses oxidative combustion followed by thermal conductivity detection (CEH Lancaster).\n\nTotal phosphorus was measured at CEH Lancaster. Total phosphorus is digested with a H2O2/Sulphuric Acid (H2SO4) based digestion reagent mix (along with selenium and lithium sulphate) and subsequent colorimetric analysis carried out on a Seal discrete analyser (CEH Lancaster).\n\nAll results were entered into Excel spreadsheets providing individual datasets for each set of N parameters. Data were exported from Excel as .csv files for ingestion into the EIDC. ","locations":["POLYGON((-4.022 50.767, -4.022 55.873, -3.191 55.873, -3.191 50.767, -4.022 50.767))"],"metadataDate":"2026-06-29T17:10:05.000Z","orcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0001-8610-9717","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0003-2869-0616","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0001-8659-6092","https://orcid.org/0000-0002-2713-4389"],"organisation":["UK Centre for Ecology & Hydrology","Centre for Ecology & Hydrology","Unaffiliated","Bangor University","Rothamsted Research","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre"],"publicationDate":"2019-04-26T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/7a87dde4-b54e-49b0-8751-1d59e8aebb90","10.5285/7a87dde4-b54e-49b0-8751-1d59e8aebb90","doi:10.5285/7a87dde4-b54e-49b0-8751-1d59e8aebb90"],"resourceType":"Dataset","ror":["https://ror.org/00pggkr55","https://ror.org/006jb1a24","https://ror.org/0347fy350","https://ror.org/04xw4m193"],"shortenedDescription":"The data consist of soil physicochemical and biological data for three soil depths (0-15, 15-30 and 30-60 cm) from a three-cut silage plot trial located at three grassland sites within the UK collected between April 2016 and October 2016. The sites were Rothamsted Research…","state":"published","supplementalDescription":["Project website","Related paper"],"supplementalName":["CENTRE FOR IMPROVED NITROGEN AGRONOMY"," Miranda et al. (2001)","Weil et al., (2003)","DeLuca et al. (2015)"],"title":"Soil chemical and physical properties from inorganic fertiliser additions to grassland at North Wyke, Henfaes and Easter Bush, UK (2016)","topic":["0/Soil/"],"version":1.0,"view":["public","danor"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology"],"authorFamilyName":["Cowan"],"authorFullName":["Cowan, N."],"authorGivenName":["N."],"authorRor":["https://ror.org/00pggkr55"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"Data from 38 experimental sites across the UK and Ireland were collated resulting in 623 separate mineral fertiliser N2O emission factors (EF) estimates derived from field measurements. Data were either i) extracted from published studies in which one aim of the experimentation was to explicitly measure N2O and report EFs after a mineral fertiliser application, or ii) raw data were used from the Agricultural and Environmental Data Archive (AEDA).\n\nTo find the published data, a survey of literature was conducted using Google Scholar for articles considered ‘recent’ (20 years or fewer), i.e. published after January 1998 and submitted before April 2019. The following search terms and their variations were used: N2O, nitrous oxide, emission factor, mineral fertiliser, ammonium nitrate, urea, nitrification inhibitor, nitrogen use efficiency, agriculture, greenhouse gas, grassland and arable. This search based on keywords was complemented with a search through the literature cited in the articles found and known previous research.","documentType":"GEMINI_DOCUMENT","familyName":["Cowan"],"fullName":["Cowan, N."],"funder":["Biotechnology and Biological Sciences Research Council","Natural Environment Research Council"],"givenName":["N."],"grant":["BB/N013468/1","NE/S003614/1"],"identifier":"9948d1b9-caa1-4894-93e6-cc0f4326fced","incomingCitationCount":1,"keyword":["Agriculture","ammonium nitrate","nitrous oxide","urea","N2O","nitrification inhibitor","nitrogen use efficiency","greenhouse gas","arable farming","grassland","agriculture","mineral fertiliser","nitrogen oxides","nitrification","emission factor"],"keywordsOther":["ammonium nitrate","nitrous oxide","urea","N2O","nitrification inhibitor","nitrogen use efficiency","greenhouse gas","arable farming","grassland","agriculture","mineral fertiliser","nitrogen oxides","nitrification","emission factor"],"keywordsTheme":["Agriculture"],"licence":"Open government licence","lineage":"Raw data extracted from the Agricultural and Environmental Data Archive (AEDA) was used to calculate emission factors  (EFs) for 25 days after fertiliser application using the log-normal Bayesian approach as described in Levy et al., 2017, Cowan et al., 2019a, which accounts for the log-normal spatial and temporal distribution of N2O fluxes after fertiliser events. Fertilisers treated with nitrification and urease inhibitors in these studies were included for comparison.","locations":["POLYGON((-10.757 49.864, -10.757 60.861, 1.768 60.861, 1.768 49.864, -10.757 49.864))"],"metadataDate":"2026-06-27T19:22:33.000Z","organisation":["UK Centre for Ecology & Hydrology","NERC Environmental Information Data Centre","NERC EDS Environmental Information Data Centre"],"publicationDate":"2021-04-08T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/9948d1b9-caa1-4894-93e6-cc0f4326fced","10.5285/9948d1b9-caa1-4894-93e6-cc0f4326fced","doi:10.5285/9948d1b9-caa1-4894-93e6-cc0f4326fced"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology"],"ror":["https://ror.org/00pggkr55","https://ror.org/04xw4m193"],"shortenedDescription":"Data from 38 experimental sites across the UK and Ireland were collated resulting in 623 separate mineral fertiliser N2O emission factors (EF) estimates derived from field measurements. Data were either i) extracted from published studies in which one aim of the experimentation…","state":"published","supplementalDescription":["\n"],"supplementalName":["Levy, P.E., Cowan, N., van Oijen, M., Famulari, D., Drewer, J., Skiba, U., 2017. Estimation of cumulative fluxes of nitrous oxide: uncertainty in temporal upscaling and emission factors. European Journal of Soil Science 68, 400–411."],"title":" Nitrous oxide emission factors of mineral fertilisers in the UK and Ireland (1999-2019)","topic":["0/Agriculture/"],"version":1.0,"view":["public","crimar"]},{"authorAffiliation":["UK Centre for Ecology & Hydrology","James Hutton Institute","Forest Research"],"authorFamilyName":["Perry","Beaton","Stockan","Cottrell","Iason","Cavers"],"authorFullName":["Perry, A.","Beaton, J.K.","Stockan, J.A.","Cottrell, J.E.","Iason, G.R.","Cavers, S."],"authorGivenName":["A.","J. K.","J. A.","J. E.","G. R.","S."],"authorOrcid":["https://orcid.org/0000-0002-7889-7597","https://orcid.org/0000-0001-9900-9010","https://orcid.org/0000-0003-2139-9236"],"authorRor":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/03wcc3744"],"availability":"Available","catalogue":"eidc","dataFormat":["Tab delimited text"],"description":"This dataset contains daily temperature and temperature variance measurements recorded at three nurseries in Scotland between 2007 and 2012. Each nursery contained Scots pine trees grown using seed collected from 21 native Caledonian pinewood provenances, with 8 seedlings from each of 10 families per provenance (total 1680 trees per nursery) included.\n\nThis dataset was created as part of a multi-site long term garden experimental trial investigating the effect of nursery environment on Scots pine growth and development, and is part of the newLEAF and PROTREE projects. \n\n\n","documentType":"GEMINI_DOCUMENT","familyName":["Perry","Beaton","Stockan","Cottrell","Iason","Cavers"],"fullName":["Perry, A.","Beaton, J.K.","Stockan, J.A.","Cottrell, J.E.","Iason, G.R.","Cavers, S."],"funder":["Natural Environment Research Council","Biotechnology and Biological Sciences Research Council","Scottish Government","Department for Environment Food and Rural Affairs","Economic and Social Research Council"],"givenName":["A.","J. K.","J. A.","J. E.","G. R.","S."],"grant":["NE/V019813/1","BB/L012243/1"],"identifier":"81841d93-41e2-47a7-b15a-92d1e1cf07f7","incomingCitationCount":0,"keyword":["Environmental survey","Pinus sylvestris","Scots pine","pine forest","Caledonian pinewood","Adaptive trait variation","Common garden experiment","growth","temperature","variance","tree nursery"],"keywordsOther":["Pinus sylvestris","Scots pine","pine forest","Caledonian pinewood","Adaptive trait variation","Common garden experiment","growth","temperature","variance","tree nursery"],"keywordsTheme":["Environmental survey"],"licence":"Open government licence","lineage":"Temperature was automatically recorded hourly using a data logger in each location from 2007 to 2012. Daily maximum, minimum and average temperature and temperature variances were calculated from the hourly data and are presented here.  Where more than one hourly record was missing within a 24 hour period, no temperature or temperature variances were calculated for this day and the day's record is omitted from this dataset","locations":["POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))"],"metadataDate":"2026-06-29T16:11:21.000Z","orcid":["https://orcid.org/0000-0002-7889-7597","https://orcid.org/0000-0001-9900-9010","https://orcid.org/0000-0003-2139-9236"],"organisation":["UK Centre for Ecology & Hydrology","James Hutton Institute","Forest Research","NERC EDS Environmental Information Data Centre","The James Hutton Institute"],"publicationDate":"2024-10-15T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/81841d93-41e2-47a7-b15a-92d1e1cf07f7","10.5285/81841d93-41e2-47a7-b15a-92d1e1cf07f7","doi:10.5285/81841d93-41e2-47a7-b15a-92d1e1cf07f7"],"resourceType":"Dataset","rightsHolder":["UK Centre for Ecology & Hydrology","Forest Research","The James Hutton Institute"],"ror":["https://ror.org/00pggkr55","https://ror.org/03rzp5127","https://ror.org/03wcc3744","https://ror.org/04xw4m193"],"shortenedDescription":"This dataset contains daily temperature and temperature variance measurements recorded at three nurseries in Scotland between 2007 and 2012. Each nursery contained Scots pine trees grown using seed collected from 21 native Caledonian pinewood provenances, with 8 seedlings…","state":"published","title":"Long-term multisite Scots pine trial, Scotland: temperatures and temperature variances for tree nurseries, 2007-2012","topic":["0/Environmental survey/"],"version":1.0,"view":["public","jashun"]},{"authorAffiliation":["Rothamsted Research","Bangor University","Unaffiliated","Centre for Ecology & Hydrology"],"authorFamilyName":["Carswell","Shaw","Sánchez-Rodríguez","Cotton","Chadwick","Jones","Misselbrook","Saunders","Hunt","Reinsch"],"authorFullName":["Carswell, A.M.","Shaw, R.","Sánchez-Rodríguez, A.R.","Cotton, J.M.","Chadwick, D.R.","Jones, D.L.","Misselbrook, T.H.","Saunders, K.S.","Hunt, J.","Reinsch, S."],"authorGivenName":["A.M.","R.","A.R.","J.M.","D.R.","D.L.","T.H.","K.S.","J.","S."],"authorOrcid":["https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0003-4649-0677"],"authorRor":["https://ror.org/051h34p92","https://ror.org/006jb1a24","https://ror.org/00pggkr55"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The data consists of nitrogen (N) offtake, N emissions and soil N parameters, and herbage quality parameters from a three-cut silage plot trial located at two grassland sites within the UK collected between April and October 2016. The sites were Rothamsted Research at North Wyke in Devon and Bangor University at Henfaes Research Station in North Wales. At each site measurements were taken from 16 plots, organised within a randomised complete block design. Fertiliser was applied three times and three cuts were performed, all parameters measured were following a fertiliser application. Nitrogen parameters measured were crude protein (CP) of herbage, ammonia (NH3) emissions, nitrous oxide (N2O) emissions, and soil ammonium (NH4) and nitrate (NO3). Herbage quality parameters measured were dry matter, acid-digestible fibre (ADF), ash, CP, metabolizable energy (ME), and non-digestible fibre (NDF) and digestibility (D) was calculated. \n\nNitrogen offtake, losses and fluxes were measured to determine the N use efficiency and the economic viability of different N fertilisers.\nMeasurements were undertaken by members of staff from Bangor University, School of Environment, Natural Resources & Geography and Rothamsted Research, Sustainable Agricultural Sciences – North Wyke.\n\nData was collected for the Newton Fund project \"UK-China Virtual Joint Centre for Improved Nitrogen Agronomy\". Funded by Biotechnology and Biological Sciences Research Council (BBSRC) and NERC -  Ref BB/N013468/1","documentType":"GEMINI_DOCUMENT","familyName":["Reinsch","Carswell","Shaw","Sánchez-Rodríguez","Cotton","Chadwick","Jones","Misselbrook","Saunders","Hunt"],"fullName":["Reinsch, S.","Carswell, A.M.","Shaw, R.","Sánchez-Rodríguez, A.R.","Cotton, J.M.","Chadwick, D.R.","Jones, D.L.","Misselbrook, T.H.","Saunders, K.S.","Hunt, J."],"funder":["Biotechnology and Biological Sciences Research Council"],"givenName":["Sabine","A.M.","R.","A.R.","J.M.","D.R.","D.L.","T.H.","K.S.","J.","S."],"grant":["BB/N013468/1"],"identifier":"4c7d4b3c-88f7-43ab-a50f-b6804474e568","incomingCitationCount":0,"keyword":["CINAg","Centre for Improved Nitrogen Agronomy","Agriculture","Climate and climate change","Pollution","Urease inhibitor","Nitrogen use efficiency (NUE)","GHG","fertiliser","nitrogen","grassland","greenhouse gas"],"keywordsOther":["Urease inhibitor","Nitrogen use efficiency (NUE)","GHG","fertiliser","nitrogen","grassland","greenhouse gas"],"keywordsProject":["CINAg","Centre for Improved Nitrogen Agronomy"],"keywordsTheme":["Agriculture","Climate and climate change","Pollution"],"licence":"Open government licence","lineage":"At each site measurements were taken from sixteen plots, organised within a randomised complete block design. Four plots did not receive fertilizers (controls), four plots received urea only, four plots received urea and urea-inhibitors, and 4 plots received Ammonium-nitrate (Nitram).\n\nCumulative NH3 emissions were measured using a wind tunnel technique, at a daily resolution for 21 days following each N fertiliser application. \nNitrous oxide emissions were measured using a combination of static manual and static automatic (combined with an Isotopic N2O Analyser, Los Gatos Research Inc. San Jose, CA, USA) chambers. Using the manual static chambers, the resolution of N2O measurements following N fertiliser application was 3 x weekly for weeks 1 and 2, 2 x weekly for weeks 3 and 4, and 1 x weekly thereafter. Using the automatic static chambers, the resolution of N2O measurements following N fertiliser application was approximately every six hours.\n\nSamples for soil NH4 and NO3 analyses were collected at the same temporal resolution as the N2O sampling using manual static chambers.\nHerbage yield measurements were carried out on the day of cutting, and samples of the fresh-cut herbage were couriered within 24 h to external contractors (Trouw Nutrition GB, Blenheim House, Ashbourne, UK and Sciantec Analytical Laboratories, Stockbridge Technology Centre, York, UK) for quality analyses of (CP, ME, NDF, ADF and DM). Digestibility was calculated.\n\nAll results were entered into Excel spreadsheets providing individual datasets for each set of N parameters. Data were exported from Excel as .csv files for ingestion into the EIDC.","locations":["POLYGON((-4.022 50.767, -4.022 53.241, -3.892 53.241, -3.892 50.767, -4.022 50.767))"],"metadataDate":"2026-06-29T16:27:16.000Z","orcid":["https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0003-4649-0677"],"organisation":["UK Centre for Ecology & Hydrology","Rothamsted Research","Bangor University","Unaffiliated","Centre for Ecology & Hydrology","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre"],"publicationDate":"2019-04-16T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/4c7d4b3c-88f7-43ab-a50f-b6804474e568","10.5285/4c7d4b3c-88f7-43ab-a50f-b6804474e568","doi:10.5285/4c7d4b3c-88f7-43ab-a50f-b6804474e568"],"resourceType":"Dataset","ror":["https://ror.org/00pggkr55","https://ror.org/051h34p92","https://ror.org/006jb1a24","https://ror.org/04xw4m193"],"shortenedDescription":"The data consists of nitrogen (N) offtake, N emissions and soil N parameters, and herbage quality parameters from a three-cut silage plot trial located at two grassland sites within the UK collected between April and October 2016. The sites were Rothamsted Research…","state":"published","supplementalDescription":["Project web site"],"supplementalName":["THE UK-CHINA VIRTUAL JOINT CENTRE FOR IMPROVED NITROGEN AGRONOMY (CINAG)"],"title":"Greenhouse gas emissions, nitrogen use efficiency and biomass from inorganic fertiliser additions to grassland at North Wyke and Henfaes, UK (2016)","topic":["0/Agriculture/","0/Climate and climate change/","0/Pollution/"],"version":1.0,"view":["public","danor"]},{"authorAffiliation":["Rothamsted Research","Centre for Ecology & Hydrology","Bangor University"],"authorFamilyName":["Blaud","Abadie","Clark","Hirsch","Griffiths","Goodall","Carswell","Misselbrook","Shaw","Sánchez-Rodríguez","Chadwick","Jones","Cowan","Skiba","Reinsch"],"authorFullName":["Blaud, A.","Abadie, M.","Clark, I.M.","Hirsch, P.R.","Griffiths, R.I.","Goodall, T.I.","Carswell, A.M.","Misselbrook, T.H.","Shaw, R.","Sánchez-Rodríguez, A.R.","Chadwick, D.R.","Jones, D.L.","Cowan, N.J.","Skiba, U.","Reinsch, S."],"authorGivenName":["A.","M.","I.M.","P.R.","R.I.","T.I.","A.M.","T.H.","R.","A.R.","D.R.","D.L.","N.J.","U.","S."],"authorOrcid":["https://orcid.org/0000-0003-0860-8080","https://orcid.org/0000-0002-1589-5420","https://orcid.org/0000-0002-3341-4547","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0001-8659-6092","https://orcid.org/0000-0003-4649-0677"],"authorRor":["https://ror.org/0347fy350","https://ror.org/00pggkr55","https://ror.org/006jb1a24"],"availability":"Available","catalogue":"eidc","dataFormat":["Comma-separated values (CSV)"],"description":"The data nitrogen gene data, soil biodiversity indices and microbial community composition, for three soil depths (0-15, 15-30 and 30-60 cm) from a three-cut silage plot trial located at three grassland sites within the UK collected between April 2016 and October 2016. The sites were Rothamsted Research at North Wyke in Devon, Bangor University at Henfaes Research Station in North Wales and Easter Bush in Scotland.\n\nAt each site measurements were taken from 16 plots, organised within a randomised complete block design where 4 plots did not receive fertilizers (controls), 4 plots received urea only, 4 plots received urea and urea-inhibitors, and 4 plots received ammonium-nitrate (Nitram). Fertiliser was applied three times and three cuts were performed, all parameters measured were following a fertiliser application. Samples were taken before the fertilizer additions, at peak growth and before the last silage cut.\n\nSoil chemical parameters were: soil nitrate, ammonium, dissolved organic carbon and nitrogen, amino acids and peptides, soil organic matter content as loss-on-ignition, pH, sodium, potassium, calcium, magnesium, permanganate oxdisable carbon citric acid extractable phosphorous, Olsen-P and total carbon, nitrogen and phosphorus. Soil biological measure were: microbial biomass carbon and nitrogen. Soil physico-chemical parameters were measured on the same samples and are available in a related dataset measured on the same soil samples and are presented in a separate dataset in the project data series (https://catalogue.ceh.ac.uk/id/7a87dde4-b54e-49b0-8751-1d59e8aebb90).\n\nMeasurements were undertaken by members of staff from the Centre of Ecology & Hydrology (Bangor, Edinburgh, Lancaster, Wallingford), Bangor University, School of Environment, Natural Resources & Geography and Rothamsted Research, Sustainable Agricultural Sciences, North Wyke.\n\nData was collected for the Newton Fund project \"UK-China Virtual Joint Centre for Improved Nitrogen Agronomy\". Funded by Biotechnology and Biological Sciences Research Council (BBSRC) and NERC -  Ref BB/N013468/1","documentType":"GEMINI_DOCUMENT","familyName":["Reinsch","Blaud","Abadie","Clark","Hirsch","Griffiths","Goodall","Carswell","Misselbrook","Shaw","Sánchez-Rodríguez","Chadwick","Jones","Cowan","Skiba"],"fullName":["Reinsch, S.","Blaud, A.","Abadie, M.","Clark, I.M.","Hirsch, P.R.","Griffiths, R.I.","Goodall, T.I.","Carswell, A.M.","Misselbrook, T.H.","Shaw, R.","Sánchez-Rodríguez, A.R.","Chadwick, D.R.","Jones, D.L.","Cowan, N.J.","Skiba, U."],"funder":["Biotechnology and Biological Sciences Research Council"],"givenName":["S.","A.","M.","I.M.","P.R.","R.I.","T.I.","A.M.","T.H.","R.","A.R.","D.R.","D.L.","N.J.","U."],"grant":["BB/N013468/1"],"identifier":"59f81d41-a789-4c5c-8ab8-36baa7ac2c55","incomingCitationCount":0,"keyword":["CINAg","Centre for improved Nitrogen agronomy","Soil","Urease Inhibitor","Soil properties","grassland","nitrogen","fertiliser","soil"],"keywordsOther":["Urease Inhibitor","Soil properties","grassland","nitrogen","fertiliser","soil"],"keywordsProject":["CINAg","Centre for improved Nitrogen agronomy"],"keywordsTheme":["Soil"],"licence":"Open government licence","lineage":"Soil samples were taken by members of the sites. At North Wyke and Henfaes farm, staff from CEH Bangor helped taking the samples. Two sets of soil cores were taken. One was sent in cooling boxes on ice to CEH Bangor for measuring soil physicochemical properties. The second set was sent to Rothamsted Research Harpenden for the analysis of nitrogen genes and microbial community composition (related dataset). The topsoil 0-15 cm were taken with the same type of corer across the sites, samples below 15 cm soil depth were sampled with corers available at the sites. Samples were wet sieved to 5 mm by staff from Bangor University and CEH Bangor. Subsamples of these were analysed for physicochemical and biological parameters.\n\nDNA extractions were performed by Rothamsted Research Harpenden. Extracts were analyzed for nitrogen genes at Rothamsted Research in Harpenden. Extracts were also sent to CEH Wallingford for analyses of Operational Taxonomic Units (OTU's).\n\nSoil community DNA was extracted from 0.25 gams soil using the MoBio DNA PowerSoil DNA isolation kit (Mo Bio Laboratories, Inc. Carlsbad, CA), following manufacturer’s protocol. Extracted DNA was quantified by fluorometer Qubit® 2.0 dsDNA BR Assay Kit (Thermo Fisher Scientific) and quality checked by nanodrop (Thermo Fisher Scientific).\n\nQuantitative-polymerase chain reaction (qPCR) protocols were as detailed in De Sosa et al. 2018.\n\nMicrobial nitrogen cycling gene abundance was investigated by qPCR targeting specific genes or genetic regions. Bacterial and archaeal communities were targeted via the 16S rRNA genes, while the fungal community abundance was targeted by the ITS region. The different genes involved in soil nitrogen cycling were investigated: \n•\tNitrogen fixation (nifH gene)\n•\tNitrification by targeting the ammonia oxidising bacteria (AOB) and archaea (AOA) (amoA gene)\n•\tDenitrifiers via the nitrite reductase (nirK and nirS genes) and the nitrous oxide reductase (nosZ genes clade I and II)\n•\tDegradation of urea was also assessed by targeting the ureC gene\n\nqPCR amplifications were performed in 10 μL volumes containing 5 μL of QuantiFast (Qiagen, Manchester, UK), 2.8 μL of nuclease-free water (Severn Biotech, Kidderminster, UK), 0.1 μL of each primer (1 μM) and 2 μL of template DNA at 5 ng μL−1, using a CFX384 Touch® Real-Time PCR Detection System (Bio-Rad, Hemel Hempstead, UK). \n\nStandards for each molecular target were obtained using a 10 fold serial dilution of PCR products amplified from an environmental reference DNA (also used as positive control) and purified by gel extraction using the Wizard® SV Gel and PCR Clean Up System (Promega, Southampton, UK) following the manufacturer's instruction and quantified by fluorometer Qubit® 2.0 dsDNA BR Assay Kit (Thermo FisherScientific). \n\nStandard curve template DNA and the negative/positive controls were amplified in triplicate. Amplification conditions for all qPCR assays consisted in 2 steps: first denaturation at 95 degrees Celsius for 5 minutes followed by 40 cycles at 95 degrees Celsius for 10 seconds and 60 degrees Celsius for 30 seconds that included annealing, elongation and reading. Each amplification was followed by melting curve (increase in temperature from 60 degrees Celsius to 95 degrees Celsius, with a reading every 0.5degrees Celsius) to assess the specificity of each assay.\n\nThe efficiency of the qPCR varied between 85.2 percent and 95.9 percent (except nozII 74.4 percent, amplicon 746 bp long), and R2 between 0.987 and 0.999. The melting curves showed specificity for all the genes, except as expected for the fungal Internal Transcribed Spacer (ITS), that showed the amplification of products of different lengths, due to the variability in length of the ITS region between different fungal taxa (Manter and Vivanco, 2007).\n\nMicrobial diversity indices:\nExtracted DNA was supplied from Rothamsted Research in Harpenden (see section 5.4.13 in main supporting document) for amplicon sequencing at the facilities of the Molecular Ecology Group, Centre for Ecology & Hydrology, Wallingford. <50 μL volumes of DNA extract were supplied in 96-well plate format, these were subject to:\n•\t16S rRNA amplicon sequencing as per Kozich 2013 (Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform), utilising V3-V4 region primers\n•\tITS rRNA amplicon sequencing employing the Kozich 2013 strategy, utilizing ITS primers by Ihrmark 2012 (New primers to amplify the fungal ITS2 region--evaluation by 454-sequencing of artificial and natural communities)\n\nAmplicons were sequenced on Illumina MiSeq platform with V3 chemistry. Resulting sequences were demultiplexed using Illumina Basespace. 16S amplicons were processed using in-house developed pipelines for quality filtering, merging and taxonomic assignment (GreenGenes database) of operational taxonomic units (OTUs). ITS amplicons were processed using the R package Dada2 for quality filtering, merging. \nR package Vegan was used to analyse amplicon sequences. Bacterial and fungal Shannon’s Index diversity scores for each sample were produced from rarefied data using diversity function. Species richness for each sample were similarly produced using ‘specnumber’ function.\n\nBacterial phylum level frequencies were produced from taxonomically identified OTU sequences (using Greengenes database), these values are a percentage of the rarefied total.\n\nAll results were entered into CSV spreadsheet.","locations":["POLYGON((-4.022 50.767, -4.022 55.873, -3.191 55.873, -3.191 50.767, -4.022 50.767))"],"metadataDate":"2026-06-29T16:59:02.000Z","orcid":["https://orcid.org/0000-0003-4649-0677","https://orcid.org/0000-0003-0860-8080","https://orcid.org/0000-0002-1589-5420","https://orcid.org/0000-0002-3341-4547","https://orcid.org/0000-0003-0580-6698","https://orcid.org/0000-0002-4594-3606","https://orcid.org/0000-0001-8734-2035","https://orcid.org/0000-0002-1482-4209","https://orcid.org/0000-0001-8659-6092"],"organisation":["UK Centre for Ecology & Hydrology","Rothamsted Research","Centre for Ecology & Hydrology","Bangor University","NERC EDS Environmental Information Data Centre","NERC Environmental Information Data Centre"],"publicationDate":"2019-04-24T00:00:00.000Z","recordType":"Dataset","resourceIdentifier":["https://catalogue.ceh.ac.uk/id/59f81d41-a789-4c5c-8ab8-36baa7ac2c55","10.5285/59f81d41-a789-4c5c-8ab8-36baa7ac2c55","doi:10.5285/59f81d41-a789-4c5c-8ab8-36baa7ac2c55"],"resourceType":"Dataset","ror":["https://ror.org/00pggkr55","https://ror.org/0347fy350","https://ror.org/006jb1a24","https://ror.org/04xw4m193"],"shortenedDescription":"The data nitrogen gene data, soil biodiversity indices and microbial community composition, for three soil depths (0-15, 15-30 and 30-60 cm) from a three-cut silage plot trial located at three grassland sites within the UK collected between April 2016 and October 2016.…","state":"published","supplementalDescription":["Manter, D. K., & Vivanco, J. M. (2007). Use of the ITS primers, ITS1F and ITS4, to characterize fungal abundance and diversity in mixed-template samples by qPCR and length heterogeneity analysis. Journal of Microbiological Methods, 71(1), 7–14.","Kozich, J.J., Westcott, S.L., Baxter, N.T., Highlander, S.K., & Schloss, P.D. (2013). Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform. Applied and Environmental Microbiology, 79(17), 5112–5120.","de Sosa, L.L., Glanville, H.C., Marshall, M.R., Schnepf, A., Cooper, D.M., Hill, P.W., … Jones, D.L. (2018). Stoichiometric constraints on the microbial processing of carbon with soil depth along a riparian hillslope. Biology and Fertility of Soils, 54(8), 949–963. "],"supplementalName":["Kozich 2013 ","GreenGenes database","The UK-China Virtual Joint Centre for Improved Nitrogen Agronomy (CINAG)"],"title":"Soil biological properties from an inorganic fertiliser (grass trial) experiment at North Wyke, Henfaes Farm and Easter Bush, UK (2016)","topic":["0/Soil/"],"version":1.0,"view":["public","danor"]}],"rows":20,"url":"http://catalogue.ceh.ac.uk:443/eidc/documents?facet=grant%7C(BBS%20OR%20BB/N013468/1%20OR%20NE/T007222/1%20OR%20RES-227-25-0018%20OR%20NE/V019813/1)"}