From 3944981a8470991e7c24a3487aa763eb8f00c489 Mon Sep 17 00:00:00 2001
From: Pier Luigi Buttigieg
Date: Tue, 10 Dec 2024 22:39:04 +0100
Subject: [PATCH 01/12] biodiversity and planktonic / nektonic semantics
---
src/envo/envo-edit.owl | 95 ++++++++++++++++++++++++++++++++++++++----
1 file changed, 88 insertions(+), 7 deletions(-)
diff --git a/src/envo/envo-edit.owl b/src/envo/envo-edit.owl
index 5d6f9a41..85522f14 100644
--- a/src/envo/envo-edit.owl
+++ b/src/envo/envo-edit.owl
@@ -3286,12 +3286,20 @@ Declaration(Class())
Declaration(Class())
Declaration(Class())
Declaration(Class())
+Declaration(Class())
Declaration(Class())
Declaration(Class())
Declaration(Class())
Declaration(Class())
Declaration(Class())
Declaration(Class())
+Declaration(Class())
+Declaration(Class())
+Declaration(Class())
+Declaration(Class())
+Declaration(Class())
+Declaration(Class())
+Declaration(Class())
Declaration(Class())
Declaration(Class())
Declaration(Class())
@@ -11158,9 +11166,9 @@ SubClassOf( ) Annotation( "MA:ma") "A marine bed which lies below an ocean.")
AnnotationAssertion( "FTT:1020")
AnnotationAssertion( "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.") "ocean basin floor")
AnnotationAssertion(Annotation( "ADL:FTT") "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) "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.") "ocean basin floor")
AnnotationAssertion(rdfs:label "ocean floor")
SubClassOf( )
SubClassOf( ObjectSomeValuesFrom( ))
@@ -20585,8 +20593,8 @@ SubClassOf( (organic material)
-AnnotationAssertion(Annotation( "ISBN:978-0-618-45504-1") Annotation( "ORCID:0000-0002-4366-3088") "Environmental material derived from living organisms and composed primarily of one or more biomacromolecules.")
-AnnotationAssertion( "ORCID:0000-0002-4366-3088")
+AnnotationAssertion(Annotation( ) Annotation( "ISBN:978-0-618-45504-1") "Environmental material derived from living organisms and composed primarily of one or more biomacromolecules.")
+AnnotationAssertion( )
AnnotationAssertion( "2010-03-20T08:40:04Z")
AnnotationAssertion( "EcoLexicon:organic_material")
AnnotationAssertion( "biomass")
@@ -30006,10 +30014,11 @@ SubClassOf( ObjectSomeValuesFrom(<
# Class: (geodiversity)
-AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Geodiversity") "A quality which inheres in a astronomical body or astronomical body part by virtue of the variation in its material composition, participation in geological processes, and the variation in is land- and hydroforms.")
+AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Geodiversity") "Diversity which inheres in a astronomical body or astronomical body part by virtue of the variation in its material composition, participation in geological processes, and the variation in is land- and hydroforms.")
AnnotationAssertion(Annotation( "") rdfs:comment "Materials which are usually assessed when appraising geodiversity include minerals, rocks, sediments, fossils, soils and water. Landforms factored into geodiversity metrics typically include folds, faults, and other expressions of morphology or relations between units of earth material. Natural processes that are included in measures of geodiversity are those which either maintain or change materials or geoforms, including tectonics, sediment transport, and pedogenesis. Geodiversity does not usually factor in anthropogenic entities.")
AnnotationAssertion(rdfs:label "geodiversity"@en)
-SubClassOf( )
+SubClassOf( )
+SubClassOf( ObjectSomeValuesFrom( ObjectUnionOf( )))
# Class: (IUCN natural monument or feature)
@@ -37678,6 +37687,16 @@ AnnotationAssertion(rdfs:label "s
EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( )))
SubClassOf( )
+# Class: (planktonic disposition)
+
+AnnotationAssertion(Annotation( ) "A disposition which inheres in an organism and which is realised when that organism 1) floats in a fluid, 2) is propelled by currents or other mass transport flows within that fluid, and 3) is not capable of resisting or escaping mass transport within its surrounding fluid.")
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T12:54:11Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:comment "Some organisms which are considered plankton are capable of locomotion at very local or microscopic scales (e.g. bacteria using their flagella), as long as they are unable to escape or resist the flow of the fluid medium they are surrounded by.")
+AnnotationAssertion(rdfs:label "planktonic disposition"@en)
+SubClassOf( )
+SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ))))
+
# Class: (coastal ocean water)
AnnotationAssertion( "Coastal sea water is sea water that is adjacent to a coast.")
@@ -37737,6 +37756,68 @@ AnnotationAssertion( "cell culture of eukaryotic microbes"@en)
SubClassOf( )
+# Class: (phytoplankton biomass)
+
+AnnotationAssertion( "Biomass which is part of or derived from planktonic organisms capable of photosynthesis.")
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T12:33:49Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:comment "The term phytoplankton includes all planktonic organisms capable of photosynthesis, including minute plants, cyanobacteria, diatoms, and dinoflagellates.")
+AnnotationAssertion(rdfs:label "phytoplankton biomass"@en)
+SubClassOf( )
+SubClassOf( ObjectUnionOf(ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( )))))
+
+# Class: (biomass of marine phytoplankton)
+
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T12:42:46Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:label "biomass of marine phytoplankton"@en)
+SubClassOf( )
+
+# Class: (nektonic disposition)
+
+AnnotationAssertion(Annotation( ) "A disposition which inheres in an organism and which is realised when that organism is capable of propelling itself through a water column.")
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T19:32:59Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:label "nektonic disposition"@en)
+SubClassOf( )
+SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ))))
+
+# Class: (biodiversity)
+
+AnnotationAssertion( "Diversity which inheres in an ecosystem by virtue of the variability among and across its living components.")
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T19:39:01Z"^^xsd:dateTime)
+AnnotationAssertion( "biological diversity")
+AnnotationAssertion(Annotation( ) rdfs:comment "\"Biological diversity\" means the variability among living organisms from all sources including, inter alia, terrestrial, marine and other aquatic ecosystems and the ecological complexes of which they are part; this includes diversity within species, between species and of ecosystems.")
+AnnotationAssertion(rdfs:label "biodiversity"@en)
+SubClassOf( )
+SubClassOf( ObjectSomeValuesFrom( ))
+
+# Class: (diversity)
+
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T21:25:53Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:label "diversity"@en)
+SubClassOf( )
+
+# Class: (plankter)
+
+AnnotationAssertion( "An organism which has a planktonic disposition.")
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T21:34:26Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:label "plankter"@en)
+EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( )))
+SubClassOf( )
+
+# Class: (nektonic organism)
+
+AnnotationAssertion( "An organism which has a nektonic disposition.")
+AnnotationAssertion( )
+AnnotationAssertion( "2024-12-10T21:36:20Z"^^xsd:dateTime)
+AnnotationAssertion(rdfs:label "nektonic organism"@en)
+EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( )))
+SubClassOf( )
+
# Class: (spacecraft)
AnnotationAssertion(Annotation( ) "A vehicle designed to fly in outer space."@en)
@@ -37827,14 +37908,14 @@ SubClassOf( ObjectSomeValuesFrom(<
# Class: (convective)
-AnnotationAssertion(Annotation( ) "A physical quality of a process which is characteristic of processes that transport material within a volume due to the combined effects of material property heterogeneity and body forces across that volume."@en)
+AnnotationAssertion(Annotation( ) "A physical quality of a process which transports material within a volume due to the combined effects of material property heterogeneity and body forces across that volume."@en)
AnnotationAssertion( )
AnnotationAssertion(rdfs:label "convective"@en)
SubClassOf( )
# Class: (advective)
-AnnotationAssertion(Annotation( )