{"accessLimitation":{"value":"noLimitations","availability":"Available","description":"Access to the resource is not subject to any access limitations and is available to all users without restriction.","uri":"http://vocab.nerc.ac.uk/collection/N07/current/UNRS/"},"authors":[{"familyName":"Cavers","givenName":"S.","organisationName":"UK Centre for Ecology & Hydrology","organisationIdentifier":"https://ror.org/00pggkr55","role":"author","email":"enquiries@ceh.ac.uk","nameIdentifier":"https://orcid.org/0000-0003-2139-9236","fullName":"Cavers, S."},{"familyName":"Wachowiak","givenName":"W. ","organisationName":"Adam Mickiewicz University","role":"author","email":"witwac@amu.edu.pl","nameIdentifier":"https://orcid.org/0000-0003-2898-3523","fullName":"Wachowiak, W."},{"familyName":"Perry","givenName":"A.","organisationName":"UK Centre for Ecology & Hydrology","organisationIdentifier":"https://ror.org/00pggkr55","role":"author","email":"enquiries@ceh.ac.uk","nameIdentifier":"https://orcid.org/0000-0002-7889-7597","fullName":"Perry, A."}],"availability":"Available","boundingBoxes":[{"westBoundLongitude":-9.527,"eastBoundLongitude":17.764,"southBoundLatitude":35.922,"northBoundLatitude":60.989,"bounds":"{\"type\": \"Feature\",      \"properties\": {},      \"geometry\": {        \"type\": \"Polygon\",        \"coordinates\": [[[-9.527, 35.922], [-9.527, 60.989], [17.764, 60.989], [17.764, 35.922], [-9.527, 35.922]]]      }}","coordinates":"[[[-9.527, 35.922], [-9.527, 60.989], [17.764, 60.989], [17.764, 35.922], [-9.527, 35.922]]]"}],"citation":{"authors":["Cavers, S.","Wachowiak, W.","Perry, A."],"bibtex":"https://catalogue.ceh.ac.uk/documents/0ba33e96-67cb-4650-b2bd-6ee13fa7de97/citation?format=bib","day":26,"doi":"10.5285/0ba33e96-67cb-4650-b2bd-6ee13fa7de97","month":6,"publisher":"NERC Environmental Information Data Centre","resourceTypeGeneral":"dataset","ris":"https://catalogue.ceh.ac.uk/documents/0ba33e96-67cb-4650-b2bd-6ee13fa7de97/citation?format=ris","title":"Conversion rate, frequency and state of single nucleotide polymorphism loci for Scots pine Axiom microarray","url":"https://doi.org/10.5285/0ba33e96-67cb-4650-b2bd-6ee13fa7de97","year":2020},"custodians":[{"organisationName":"NERC EDS Environmental Information Data Centre","organisationIdentifier":"https://ror.org/04xw4m193","role":"custodian","email":"info@eidc.ac.uk"}],"datasetReferenceDate":{"publicationDate":"2020-06-26"},"description":"The data comprise summary statistics for performance of a genotyping microarray for a test set of 87 samples for four pine species. The summary statistics comprise state (polymorphic, monomorphic), mean allele frequency and conversion rate, estimated for each locus as a mean across 87 sample genotypes.\n\nThe array comprised 49,829 SNPs (single nucleotide polymorphisms) from several sources. The majority (N = 49,052) were obtained from transcriptome sequencing of four pine species: Pinus sylvestris, Pinus mugo, Pinus uncinata and Pinus uliginosa. The SNP set was filtered by the array manufacturer (Thermo Fisher) based on p-convert values signifying the SNP array quality, and a list of recommended and non-recommended SNP probes (avoiding SNPs with polymorphisms within 35 bp) was provided to the authors. These included SNPs that were common to all species and also SNPs fixed in one species and polymorphic within and among others. \n\n A further set of SNPs (N = 578) were included from candidate genes (N = 279), which had been resequenced in previous population genetic studies of the pine species. Variation in mitochondrial DNA (mtDNA) was targeted by inclusion of a set of mtDNA- specific SNPs (N = 14). \n\nFinally, a set of SNPs putatively associated with susceptibility to Dothistroma needle blight (discovered in Pinus radiata, European Nucleotide Archive accession numbers ERS1034542-53) were also included (N = 185). ","distributionFormats":[{"name":"Plain text","type":"text/plain","version":"unknown"}],"distributorContacts":[{"organisationName":"NERC EDS Environmental Information Data Centre","organisationIdentifier":"https://ror.org/04xw4m193","role":"distributor","email":"info@eidc.ac.uk"}],"id":"0ba33e96-67cb-4650-b2bd-6ee13fa7de97","incomingCitationCount":1,"incomingCitations":[{"description":"Perry, A., Wachowiak, W., Downing, A., Talbot, R., & Cavers, S. (2020). Development of a single nucleotide polymorphism array for population genomic studies in four European pine species. Molecular Ecology Resources, 20(6), 1697–1705.","url":"https://doi.org/10.1111/1755-0998.13223"}],"infoLinks":[{"url":"https://data-package.ceh.ac.uk/sd/0ba33e96-67cb-4650-b2bd-6ee13fa7de97.zip","name":"Supporting information","description":"Supporting information available to assist in re-use of this dataset","function":"information","type":"OTHER"}],"inspireThemes":[{"theme":"Environmental Monitoring Facilities","uri":"http://inspire.ec.europa.eu/theme/ef"}],"keywordsOther":[{"value":"Pinus sylvestris","uri":"http://www.wikidata.org/entity/Q133128"},{"value":"Pinus mugo","uri":"http://www.wikidata.org/entity/Q147475"},{"value":"Pinus uliginosa","uri":"http://www.wikidata.org/entity/Q106918407"},{"value":"Pinus uncinata","uri":"http://www.wikidata.org/entity/Q149548"},{"value":"Genomics"},{"value":"Microarray"},{"value":"SNPs"},{"value":"Polymorphism"},{"value":"Divergence"},{"value":"Natural selection"},{"value":"Speciation"},{"value":"conifer","uri":"http://www.eionet.europa.eu/gemet/concept/1692"}],"licences":[{"value":"This resource is available under the terms of the Open Government Licence","code":"license","uri":"https://eidc.ac.uk/licences/ogl/plain"}],"lineage":"The dataset is a list of 49,829 SNP loci, identified by individual code with accompanying columns of basic information and statistics (Conversion type (Poly - polymorphic, Mono-monomorphic), mean allelic frequency (MAF), and call rate (CR)).\n\n","metadataDate":"2026-06-29T16:19:09","notGEMINI":false,"onlineResources":[{"url":"https://data-package.ceh.ac.uk/data/0ba33e96-67cb-4650-b2bd-6ee13fa7de97","name":"Download the data","description":"Download a copy of this data","function":"download","type":"OTHER"},{"url":"https://data-package.ceh.ac.uk/sd/0ba33e96-67cb-4650-b2bd-6ee13fa7de97.zip","name":"Supporting information","description":"Supporting information available to assist in re-use of this dataset","function":"information","type":"OTHER"}],"pointsOfContact":[{"honorificPrefix":"Dr","familyName":"Cavers","givenName":"Stephen","organisationName":"UK Centre for Ecology & Hydrology","organisationIdentifier":"https://ror.org/00pggkr55","role":"pointOfContact","email":"enquiries@ceh.ac.uk","address":{"deliveryPoint":"Bush Estate","city":"Penicuik","administrativeArea":"Midlothian","postalCode":"EH26 0QB","country":"United Kingdom"},"fullName":"Cavers, S.","pointOfContact":"UK Centre for Ecology & Hydrology"}],"publicationDate":"2020-06-26T00:00:00.000Z","publishers":[{"organisationName":"NERC Environmental Information Data Centre","organisationIdentifier":"https://ror.org/04xw4m193","role":"publisher","email":"info@eidc.ac.uk"}],"resourceIdentifiers":[{"code":"https://catalogue.ceh.ac.uk/id/0ba33e96-67cb-4650-b2bd-6ee13fa7de97"},{"code":"10.5285/0ba33e96-67cb-4650-b2bd-6ee13fa7de97","codeSpace":"doi"}],"resourceType":{"value":"dataset"},"responsibleParties":[{"familyName":"Cavers","givenName":"S.","organisationName":"UK Centre for Ecology & Hydrology","organisationIdentifier":"https://ror.org/00pggkr55","role":"author","email":"enquiries@ceh.ac.uk","nameIdentifier":"https://orcid.org/0000-0003-2139-9236","fullName":"Cavers, S."},{"familyName":"Wachowiak","givenName":"W. 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