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Official repository for Semantic Web for Earth and Environmental Terminology (SWEET) Ontologies
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oxygen minimum zone #131

Open kaiiam opened 5 years ago

kaiiam commented 5 years ago

Preferred term label

oxygen minimum zone

or marine oxygen minimum zone

Synonyms

hypoxic zone

Textual definition

From the wikipedia page we have the definition:

The Oxygen minimum zone (OMZ), sometimes referred to as the shadow zone, is the zone in which oxygen saturation in seawater in the ocean is at its lowest.

Orchid

http://orcid.org/0000-0002-3410-4655

kaiiam commented 5 years ago

From this paper Microbial ecology of expanding oxygen minimum zones

They give the definition:

Oxygen minimum zones (OMZs) are oxygen-starved regions of the ocean that are currently expanding owing to the warming of the water column that is induced by global climate change.
nicholascar commented 4 years ago

Using the annotation suggestions from https://github.com/ESIPFed/sweet/wiki/SWEET-Class-Annotations-Proposal, I think this proposal, annotated at the whole-of-class level, as opposed to that wiki page's example for just a definition, is as follows. Note that I have not identified the position of this class in SWEET as this is not my area:

###  http://sweetontology.net/xxxx/OxygenMinimumZone
xxxx:OxygenMinimumZone
    a owl:Class ;
    rdfs:subClassOf XXXX
    skos:prefLabel "oxygen minimum zone"@en ;
    skos:altLabel "marine oxygen minimum zone"@en , "hypoxic zone"@en ;
    skos:definition  "Oxygen minimum zones (OMZs) are oxygen-starved regions of the ocean that are currently expanding owing to the warming of the water column that is induced by global climate change."@en ;
    dct:source <https://www.nature.com/articles/nrmicro2778> ;
    rdfs:seeAlso <https://en.wikipedia.org/wiki/Oxygen_minimum_zone> ;
    dct:created "2019-07-19"^^xsd:date ;
    dct:creator <http://orcid.org/0000-0002-3410-4655> ;
.
kaiiam commented 4 years ago

Thanks @nicholascar for the feedback

examining the owl code for marine oxygen minimum zone we have the following:

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://en.wikipedia.org/wiki/Oxygen_minimum_zone") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/ENVO_01000065> "A marine water mass which is characterized by having much lower than normal dissolved oxygen concentrations persistently.")

Typically in ENVO we assert the database cross references as an annotation property of the definition.

@pbuttigieg thoughts on asserting the reference at the class level instead?