[ { "@graph" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc", "@type" : [ "http://www.nanopub.org/nschema#Nanopublication" ], "http://www.nanopub.org/nschema#hasAssertion" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#assertion" } ], "http://www.nanopub.org/nschema#hasProvenance" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#provenance" } ], "http://www.nanopub.org/nschema#hasPublicationInfo" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#pubinfo" } ] } ], "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#Head" }, { "@graph" : [ { "@id" : "http://purl.obolibrary.org/obo/RO_0002303", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "has habitat" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#assertion", "@type" : [ "https://w3id.org/np/o/ntemplate/AssertionTemplate" ], "http://purl.org/dc/terms/description" : [ { "@value" : "

Such a nanopublication expresses an association between an organism instance and an environment, expressing that the given organism was observed in the specified type of environment.

" } ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "Expressing an association between an individual organism and an environment" } ], "https://w3id.org/np/o/ntemplate/hasDefaultProvenance" : [ { "@id" : "http://purl.org/np/RA2VjRiJ5AsNnPHDXuOqvsEJwTwqtj5rBb-OFkpPOzd9s" } ], "https://w3id.org/np/o/ntemplate/hasNanopubLabelPattern" : [ { "@value" : "Organism of ${taxonname} - ${relation} - ${environment}" } ], "https://w3id.org/np/o/ntemplate/hasStatement" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st00" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st05" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st09" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st10" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st11" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st12" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st20" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st25" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st30" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st39" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st81" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st82" }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st90" } ], "https://w3id.org/np/o/ntemplate/hasTag" : [ { "@value" : "Biodiversity" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association", "@type" : [ "https://w3id.org/np/o/ntemplate/IntroducedResource", "https://w3id.org/np/o/ntemplate/LocalResource" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "this association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#comment", "@type" : [ "https://w3id.org/np/o/ntemplate/LongLiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "short explanation related to the above statement" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#coordinates", "@type" : [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "lat/long coordinates in format like '+47.37+8.54' or with altitude '+47.37+8.54+410.5'" } ], "https://w3id.org/np/o/ntemplate/hasRegex" : [ { "@value" : "[+-][0-9]+(\\.[0-9]+)?[+-][0-9]+(\\.[0-9]+)?([+-][0-9]+(\\.[0-9]+)?)?" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#environment", "@type" : [ "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "the environment to be associated with the organism" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi" : [ { "@value" : "https://www.ebi.ac.uk/ols/api/select?ontology=envo&fieldList=iri,label,description&q=" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#lifecyclestage", "@type" : [ "https://w3id.org/np/o/ntemplate/RestrictedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "select the life cycle stage of the organism; leave blank if unknown" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFrom" : [ { "@id" : "http://purl.org/np/RAVZS2MV-siFEqsgFTtgSoKA5qJkp7r1nM_n-MqPkvgdE" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#occurrence", "@type" : [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "occurrence URI from GBIF (https://www.gbif.org/occurrence/...) or iDigBio, BOLD, PlutoF, etc." } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organism", "@type" : [ "https://w3id.org/np/o/ntemplate/LocalResource" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "the organism" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organismAlt", "@type" : [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "any existing URI identifier of organism (e.g. of digital collection specimen or observation in nature)" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#relation", "@type" : [ "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "the relation between the two organisms" } ], "https://w3id.org/np/o/ntemplate/possibleValue" : [ { "@id" : "http://purl.obolibrary.org/obo/RO_0002303" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi" : [ { "@value" : "https://www.ebi.ac.uk/ols/api/select?ontology=ro&fieldList=iri,label,description&q=" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st00", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "https://w3id.org/kpxl/biodiv/terms/OrganismToEnvironmentAssociation" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "http://www.w3.org/1999/02/22-rdf-syntax-ns#type" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st05", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#relation" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/biolink/vocab/predicate" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st09", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organism" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/biolink/vocab/subject" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st10", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxon" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "http://www.w3.org/1999/02/22-rdf-syntax-ns#type" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organism" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st11", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxonname" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/kpxl/biodiv/terms/hasTaxonName" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxon" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st12", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxondef" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/kpxl/biodiv/terms/hasTaxonConceptDefinition" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxon" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st20", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#lifecyclestage" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/kpxl/biodiv/terms/hasCycleStage" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organism" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st25", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#occurrence" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/kpxl/biodiv/terms/hasOccurrence" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organism" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st30", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement", "https://w3id.org/np/o/ntemplate/RepeatableStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organismAlt" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "http://www.w3.org/2002/07/owl#sameAs" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#organism" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st39", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#environment" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/biolink/vocab/object" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st81", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#coordinates" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/kpxl/biodiv/terms/hasLocationCoordinates" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st82", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#timepoint" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/biolink/vocab/timepoint" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#association" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#st90", "@type" : [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#comment" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "http://www.w3.org/2000/01/rdf-schema#comment" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "https://w3id.org/np/o/ntemplate/ASSERTION" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxon", "@type" : [ "https://w3id.org/np/o/ntemplate/LocalResource" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "the taxon concept" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxondef", "@type" : [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "publication DOI (https://doi.org/...) or taxon treatment ID (https://treatment.plazi.org/id/...)" } ], "https://w3id.org/np/o/ntemplate/hasRegex" : [ { "@value" : "(https://doi.org/|https://treatment.plazi.org/id/).+" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#taxonname", "@type" : [ "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "search and select from list (if not found, you may paste URL from IPNI, MycoBank, Index Fungorum, or ZooBank)" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi" : [ { "@value" : "https://vodex.petapico.org/nidx/query?rows=100&q=label:" } ] }, { "@id" : "http://purl.org/np/RA3eSKxteBFrsGXdQhllmJa71Od71rPd4wJ8ik7fIMWsc#timepoint", "@type" : [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "time expressed in XSD DateTime format, e.g. '2023-03-30T22:17:11Z'" } ], "https://w3id.org/np/o/ntemplate/hasRegex" : [ { "@value" : "-?([1-9]\\d\\d\\d+|0\\d\\d\\d)-(0[1-9]|1[0-2])-(0[1-9]|[12]\\d|3[01])T(([01]\\d|2[0-3]):[0-5]\\d:[0-5]\\d(\\.\\d+)?|24:00:00(\\.0+)?)(Z|[+-](0\\d|1[0-4]):[0-5]\\d)?" 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