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Addresses issue 1574
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Deprecated "ecozone" and added as synonym to "biogeographic realm" - ENVO:03620000 per EnvironmentOntology#1574
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@timalamenciak
timalamenciak committed Dec 16, 2024
1 parent 837761e commit 5195346
Showing 1 changed file with 9 additions and 11 deletions.
20 changes: 9 additions & 11 deletions src/envo/envo-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -11159,9 +11159,9 @@ SubClassOf(<http://purl.obolibrary.org/obo/ENVO_00000424> <http://purl.obolibrar
AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <https://en.wikipedia.org/wiki/Ocean_floor>) Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "MA:ma") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/ENVO_00000426> "A marine bed which lies below an ocean.")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/ENVO_00000426> "FTT:1020")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/ENVO_00000426> "ocean bed")
AnnotationAssertion(Annotation(rdfs:comment "When \"ocean basin\" is used in a hydrological sense, then \"ocean basin floor\" is any floor under seawater. In ENVO, the class \"ocean basin\" is used in a geological sense, which does not include all areas of ocean floor.") <http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/ENVO_00000426> "ocean basin floor")
AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "ADL:FTT") <http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/ENVO_00000426> "ocean floor feature")
AnnotationAssertion(Annotation(rdfs:comment "Seas are smaller than oceans and are usually located where the land and ocean meet. However, these two terms are often used interchangeably."@en) <http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/ENVO_00000426> "seafloor"@en)
AnnotationAssertion(Annotation(rdfs:comment "When \"ocean basin\" is used in a hydrological sense, then \"ocean basin floor\" is any floor under seawater. In ENVO, the class \"ocean basin\" is used in a geological sense, which does not include all areas of ocean floor.") <http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/ENVO_00000426> "ocean basin floor")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/ENVO_00000426> "ocean floor")
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_00000426> <http://purl.obolibrary.org/obo/ENVO_01001378>)
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_00000426> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/ENVO_00002450>))
Expand Down Expand Up @@ -11197,7 +11197,7 @@ SubClassOf(<http://purl.obolibrary.org/obo/ENVO_00000428> <http://purl.obolibrar
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_00000428> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/ENVO_01000817>))
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_00000428> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0002507> <http://purl.obolibrary.org/obo/PCO_0000002>))
DisjointClasses(<http://purl.obolibrary.org/obo/ENVO_00000428> <http://purl.obolibrary.org/obo/ENVO_01000276>)
DisjointClasses(<http://purl.obolibrary.org/obo/ENVO_00000428> <http://purl.obolibrary.org/obo/ENVO_01000280>)
DisjointClasses(<http://purl.obolibrary.org/obo/ENVO_00000428> <http://purl.obolibrary.org/obo/ENVO_03620000>)

# Class: <http://purl.obolibrary.org/obo/ENVO_00000429> (arete)

Expand Down Expand Up @@ -21844,7 +21844,7 @@ AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#inSubset> <htt
AnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/ENVO_01000276> "Specific ecoregions are geographically defined and instantiated entities (e.g. Beringia lowland tundra), and should be represented as instances / named individuals of ENVO:ecoregion or an appropriate subclass.")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/ENVO_01000276> "ecoregion")
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_01000276> <http://purl.obolibrary.org/obo/ENVO_01001110>)
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_01000276> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/ENVO_01000280>))
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_01000276> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/ENVO_03620000>))

# Class: <http://purl.obolibrary.org/obo/ENVO_01000277> (water ice)

Expand Down Expand Up @@ -21891,17 +21891,14 @@ AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#inSubset> <htt
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/ENVO_01000279> "ice lens")
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_01000279> <http://purl.obolibrary.org/obo/ENVO_01001547>)

# Class: <http://purl.obolibrary.org/obo/ENVO_01000280> (ecozone)
# Class: <http://purl.obolibrary.org/obo/ENVO_01000280> (DEPRECATED ecozone)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://en.wikipedia.org/wiki/ecozone") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/ENVO_01000280> "Ecozones delineate large areas of a planetary surface within which organisms have been evolving in relative isolation over long periods of time, separated from one another by geographic features, such as oceans, broad deserts, or high mountain ranges, that constitute barriers to migration.")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/ENVO_01000280> "ORCID:0000-0002-4366-3088")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#creation_date> <http://purl.obolibrary.org/obo/ENVO_01000280> "2013-10-13T18:32:46Z")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#inSubset> <http://purl.obolibrary.org/obo/ENVO_01000280> <http://purl.obolibrary.org/obo/envo#envoPolar>)
AnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/ENVO_01000280> "ENVO contains this top-level class, but all instances will be in GAZ. The definition is preliminary and will be aligned to BFO.
https://en.wikipedia.org/wiki/ Ecozones correspond to the floristic kingdoms of botany or zoogeographic regions of zoology. Ecozones are characterized by the evolutionary history of the organisms they contain. They are distinct from biomes, also known as major habitat types, which are divisions of the Earth's surface based on life form, or the adaptation of plants and animals to climatic, soil, and other conditions. Biomes are characterized by similar climax vegetation. Each ecozone may include a number of different biomes. A tropical moist broadleaf forest in Central America, for example, may be similar to one in New Guinea in its vegetation type and structure, climate, soils, etc., but these forests are inhabited by plants and animals with very different evolutionary histories.")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/ENVO_01000280> "ecozone")
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_01000280> <http://purl.obolibrary.org/obo/ENVO_01001110>)
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_01000280> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/ENVO_01000817>))
AnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/ENVO_01000280> "replaced by biogeographic realm - ENVO:03620000, which has a more consistent definition")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/ENVO_01000280> "DEPRECATED ecozone")
AnnotationAssertion(rdfs:seeAlso <http://purl.obolibrary.org/obo/ENVO_01000280> <http://purl.obolibrary.org/obo/ENVO_03620000>)
AnnotationAssertion(owl:deprecated <http://purl.obolibrary.org/obo/ENVO_01000280> "true"^^xsd:boolean)

# Class: <http://purl.obolibrary.org/obo/ENVO_01000281> (layer)

Expand Down Expand Up @@ -46305,6 +46302,7 @@ AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.ob
AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000119> <http://purl.obolibrary.org/obo/ENVO_03620000> "https://en.wikipedia.org/wiki/Biogeographic_realm")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> <http://purl.obolibrary.org/obo/ENVO_03620000> <https://orcid.org/0000-0002-1296-2528>)
AnnotationAssertion(<http://purl.org/dc/elements/1.1/date> <http://purl.obolibrary.org/obo/ENVO_03620000> "2024-12-10T20:32:18Z"^^xsd:dateTime)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/ENVO_03620000> "ecozone")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/ENVO_03620000> "biogeographic realm"@en)
SubClassOf(<http://purl.obolibrary.org/obo/ENVO_03620000> <http://purl.obolibrary.org/obo/ENVO_01000254>)

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