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(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/cbaa464a-ac18-42bf-8518-c746d8d97270.zip","name":"Supporting information","description":"Supporting information available to assist in re-use of this dataset","function":"information","eidcDistribution":false,"type":"OTHER"}],"inspireThemes":[{"theme":"Environmental Monitoring Facilities","uri":"http://inspire.ec.europa.eu/theme/ef"}],"keywordsOther":[{"value":"Micoarray"},{"value":"Speciation"},{"value":"Natural selection "},{"value":"Divergence "},{"value":"Polymorphism "},{"value":"Genotyping "}],"keywordsTheme":[{"value":"Environmental survey","uri":"http://onto.nerc.ac.uk/CEHMD/topic/7"}],"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 array comprised 49,829 SNPs from several sources, as follows. The majority (N = 49,052) were obtained from transcriptome sequencing of four pine species: Pinus sylvestris, P. mugo, P. uncinata and P. uliginosa (Wachowiak et al., 2015). These included SNPs which were common to all species and also SNPs fixed in one species and polymorphic within and among others. The set of SNPs identified by Wachowiak et al. (2015) 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. 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 (Kujala & Savolainen, 2012; Mosca, Eckert, Di Pierro, et al., 2012; Palmé, Wright, & Savolainen, 2008; Wachowiak, Balk, & Savolainen, 2009; Wachowiak, Zaborowska, et al., 2018). Variation in mitochondrial DNA (mtDNA) was targeted using a set of SNPs (N = 14) which had been discovered by Donnelly et al. (2017). A set of SNPs putatively associated with susceptibility to Dothistroma needle blight (discovered in Pinus radiata, ENA accession numbers ERS1034542-53) were also included (N = 185).\n","metadataDate":"2026-07-25T14:05:10","notGEMINI":false,"onlineResources":[{"url":"https://data-package.ceh.ac.uk/data/cbaa464a-ac18-42bf-8518-c746d8d97270","name":"Download the data","description":"Download a copy of this data","function":"download","eidcDistribution":true,"type":"OTHER"},{"url":"https://data-package.ceh.ac.uk/sd/cbaa464a-ac18-42bf-8518-c746d8d97270.zip","name":"Supporting information","description":"Supporting information available to assist in re-use of this dataset","function":"information","eidcDistribution":false,"type":"OTHER"}],"publicationDate":"2020-03-27T00:00:00.000Z","publishers":[{"organisationName":"NERC Environmental Information Data Centre","organisationIdentifier":"https://ror.org/04xw4m193","role":"publisher","email":"info@eidc.ac.uk"}],"relAll":[{"title":"Long-term multisite Scots pine single nucleotide polymorphism (SNP) genotypes and phenotypes for marker-trait association analysis","publicationStatus":"published","href":"https://catalogue.ceh.ac.uk/id/52248442-a50f-4fc0-a73e-31c61cd27df9","rel":"http://purl.org/dc/terms/relation","associationType":"dataset"},{"title":"Single nucleotide polymorphism (SNP) genotypes and phenotypes for marker-trait association analysis of three pine species grown in a glasshouse","publicationStatus":"published","href":"https://catalogue.ceh.ac.uk/id/55118e26-cf5c-41d6-9157-738fce6bdddf","rel":"http://purl.org/dc/terms/relation","associationType":"dataset"}],"relRelation":[{"title":"Long-term multisite Scots pine single nucleotide polymorphism (SNP) genotypes and phenotypes for marker-trait association analysis","publicationStatus":"published","availability":"Available","href":"https://catalogue.ceh.ac.uk/id/52248442-a50f-4fc0-a73e-31c61cd27df9","rel":"http://purl.org/dc/terms/relation","associationType":"dataset","geometry":"POLYGON((-8.648 54.634, -8.648 60.861, -0.728 60.861, -0.728 54.634, -8.648 54.634))","resourceIdentifiers":[{"code":"10.5285/52248442-a50f-4fc0-a73e-31c61cd27df9","codeSpace":"doi"}]},{"title":"Single nucleotide polymorphism (SNP) genotypes and phenotypes for marker-trait association analysis of three pine species grown in a glasshouse","publicationStatus":"published","availability":"Available","href":"https://catalogue.ceh.ac.uk/id/55118e26-cf5c-41d6-9157-738fce6bdddf","rel":"http://purl.org/dc/terms/relation","associationType":"dataset","geometry":"POLYGON((-3.358 55.877, -3.358 56.003, -3.013 56.003, -3.013 55.877, -3.358 55.877))","resourceIdentifiers":[{"code":"10.5285/55118e26-cf5c-41d6-9157-738fce6bdddf","codeSpace":"doi"}]}],"resourceIdentifiers":[{"code":"https://catalogue.ceh.ac.uk/id/cbaa464a-ac18-42bf-8518-c746d8d97270"},{"code":"10.5285/cbaa464a-ac18-42bf-8518-c746d8d97270","codeSpace":"doi"}],"resourceType":{"value":"dataset"},"rightsHolders":[{"organisationName":"UK Centre for Ecology & Hydrology","organisationIdentifier":"https://ror.org/00pggkr55","role":"rightsHolder","email":"enquiries@ceh.ac.uk"}],"spatialReferenceSystems":[{"code":"http://www.opengis.net/def/crs/EPSG/0/4326","title":"WGS 84"}],"spatialRepresentationTypes":["textTable"],"spatialResolutions":[{"distance":"10000","uom":"urn:ogc:def:uom:EPSG::9001"}],"title":"Scots pine single nucleotide polymorphisms (SNP) for Axiom array","topicCategories":[{"value":"biota","uri":"http://inspire.ec.europa.eu/metadata-codelist/TopicCategory/biota"}],"topics":["http://onto.nerc.ac.uk/CEHMD/topic/7"],"type":"dataset","uri":"https://catalogue.ceh.ac.uk/id/cbaa464a-ac18-42bf-8518-c746d8d97270","useConstraints":[{"value":"This resource is available under the terms of the Open Government Licence","code":"license","uri":"https://eidc.ac.uk/licences/ogl/plain"}]}