Invasion Biology Ontology
type: Ontology
version IRI: https://w3id.org/inbio/1.2.0
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
contributor: Birgitta König-Ries birgitta.koenig-ries@uni-jena.de
source: https://creativecommons.org/licenses/by-nc-sa/4.0/
creator: Alsayed Algergawy alsayed.algergawy@uni-jena.de
creator: Merle Gänßinger merle.gaenssinger@uni-jena.de
creator: Tina Heger t.heger@tum.de
creator: Hrishikesh Jadhav jadhav02@ads.uni-passau.de
comment: The Invasion Biology Ontology (INBIO) contains terms and concepts relevant in the field of invasion biology, which is a research area dealing with the translocation, establishment, spread, impact and management of species outside of their native ranges, where they are called non-native or alien species. This first version of the ontology covers terms and concepts needed to describe twelve major invasion hypotheses building the hierarchical hypothesis network (see also Jeschke JM, Heger T (Eds) (2018) Invasion Biology: Hypotheses and Evidence. CABI, Wallingford, UK).
prior version: 1.1
version info: 1.2.0

license
type: AnnotationProperty

editor note
type: AnnotationProperty
IAO_0000114: IAO_0000122
IAO_0000119: GROUP:OBI:<http://purl.obfoundry.org/obo/obi>
created by: PERSON:Daniel Schober

contributor
type: AnnotationProperty
definition: An entity responsible for making contributions to the resource.

license
type: AnnotationProperty

title
type: AnnotationProperty

license
type: AnnotationProperty

license
type: AnnotationProperty

created by
type: AnnotationProperty

affects
type: ObjectProperty
inverse of: is affected by
has exact synonym: influences

decreases
type: ObjectProperty
sub property of: affects
domain: average annual precipitation

has component
type: ObjectProperty
inverse of: is part of

has distribution
type: ObjectProperty
inverse of: is range of
domain: species
range: area

has growth
type: ObjectProperty
inverse of: is growth of
domain: population
range: growth

has mortality
type: ObjectProperty
inverse of: is mortality of
domain: population
range: death rate

has natality
type: ObjectProperty
inverse of: is natality of
domain: population
range: birth rate

has number of individuals
type: ObjectProperty
domain: population
range: total number

has recruitment
type: ObjectProperty
inverse of: is recruitment of
domain: population
range: recruitment rate

increases
type: ObjectProperty
sub property of: affects
domain: average annual precipitation

is affected by
type: ObjectProperty

is characteristic of
type: ObjectProperty
inverse of: is characterized by

is characterized by
type: ObjectProperty

is growth of
type: ObjectProperty
domain: growth
range: population

is habitat of
type: ObjectProperty
inverse of: has habitat
domain: habitat
range: species

is mortality of
type: ObjectProperty
domain: death rate
range: population

is natality of
type: ObjectProperty
domain: birth rate
range: population

is part of
type: ObjectProperty

is recruitment of
type: ObjectProperty
domain: recruitment rate
range: population

is status of
type: ObjectProperty
inverse of: has status
domain: status
range: process

characteristic for
type: ObjectProperty
type: FunctionalProperty
comment: The characteristicFor property gives the entity of the characteristic.
comment: http://ecoinformatics.org/oboe/oboe.1.1/oboe-core.owl#characteristicFor

has measurement
type: ObjectProperty
type: InverseFunctionalProperty
comment: The hasMeasurement property gives the measurements of the observed entity.
comment: http://ecoinformatics.org/oboe/oboe.1.1/oboe-core.owl#hasMeasurement

part of
type: ObjectProperty
equivalent property:
  inverse of: has part
sub property of: overlaps
inverse of: has part
editor note: Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.
editor note: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
editor note: Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.) A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'.
RO_0001900: RO_0001901
label: part_of
definition: a core relation that holds between a part and its whole

has part
type: ObjectProperty
sub property of: overlaps
editor note: Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part.
editor note: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
editor note: Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.) A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'.
RO_0001900: RO_0001901
definition: a core relation that holds between a whole and its part

occurs in
type: ObjectProperty
domain: process
range: material entity
property chain axiom: part of
has exact synonym: unfolds in
comment: Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant

is aggregate of
type: ObjectProperty
IAO_0000412: http://purl.obolibrary.org/obo/omrse.owl
has exact synonym: aggregate of

occupies spatial region at some time
type: ObjectProperty
inverse of: has spatial occupant at some time
domain: independent continuant
range: region
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t)
editor note: BFO2 Reference: independent continuant
editor note: BFO2 Reference: spatial region
has exact synonym: occupies spatial region at
definition: b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002])
definition: every region r is occupies_spatial_region r at all times. (axiom label in BFO2 Reference: [042-002])
definition: if b occupies_spatial_region r at t & b continuant_part_of b at t, then there is some r which is continuant_part_of r at t such that b occupies_spatial_region r at t. (axiom label in BFO2 Reference: [043-001])

has spatial occupant at some time
type: ObjectProperty
domain: region
range: independent continuant
editor note: [copied from inverse property 'occupies spatial region at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t)
editor note: [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: independent continuant
editor note: [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: spatial region
definition: [copied from inverse property 'occupies spatial region at some time'] b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002])

has measurement unit label
type: ObjectProperty
sub property of: has part
domain: value specification
range: measurement unit label
IAO_0000111: has measurement unit label
IAO_0000115: A relation between a value specification and its unit of measurement.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl

participates in
type: ObjectProperty
inverse of: has participant
domain: continuant
range: process
IAO_0000112: this input material (or this output material) participates in this process
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
definition: a relation between a continuant and a process, in which the continuant is somehow involved in the process

has participant
type: ObjectProperty
domain: process
range: continuant
property chain axiom: has part
IAO_0000112: this process has participant this input material (or this output material)
editor note: Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
source: http://www.obofoundry.org/ro/#OBO_REL:has_participant
definition: a relation between a process and a continuant, in which the continuant is somehow involved in the process

quality of
type: ObjectProperty
inverse of: has quality
domain: quality
range: independent continuant
IAO_0000112: this red color is a quality of this apple
editor note: A quality inheres in its bearer at all times for which the quality exists.
has exact synonym: is quality of
definition: a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence

role of
type: ObjectProperty
domain: role
range: independent continuant
editor note: A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists.
has exact synonym: is role of
definition: a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence

has quality
type: ObjectProperty
domain: independent continuant
range: quality
IAO_0000112: this apple has quality this red color
editor note: A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist.
definition: a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence

derives from
type: ObjectProperty
inverse of: derives into
domain: material entity
range: material entity
IAO_0000114: IAO_0000125
editor note: This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'.
in subset: ro-eco
comment: This relation is taken from the RO2005 version of RO. It may be obsoleted and replaced by relations with different definitions. See also the 'develops from' family of relations.
definition: a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity

derives into
type: ObjectProperty
domain: material entity
range: material entity
IAO_0000114: IAO_0000125
editor note: This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'.
in subset: ro-eco
definition: a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity

location of
type: ObjectProperty
inverse of: located in
domain: independent continuant
range: independent continuant
editor note: Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
RO_0001900: RO_0001901
has exact synonym: is location of
definition: a relation between two independent continuants, the location and the target, in which the target is entirely within the location

contained in
type: ObjectProperty
inverse of: contains
domain: material entity
range: independent continuant
property chain axiom: located in
property chain axiom: part of
editor note: Containment is location not involving parthood, and arises only where some immaterial continuant is involved.
editor note: Containment obtains in each case between material and immaterial continuants, for instance: lung contained_in thoracic cavity; bladder contained_in pelvic cavity. Hence containment is not a transitive relation. If c part_of c1 at t then we have also, by our definition and by the axioms of mereology applied to spatial regions, c located_in c1 at t. Thus, many examples of instance-level location relations for continuants are in fact cases of instance-level parthood. For material continuants location and parthood coincide. Containment is location not involving parthood, and arises only where some immaterial continuant is involved. To understand this relation, we first define overlap for continuants as follows: c1 overlap c2 at t =def for some c, c part_of c1 at t and c part_of c2 at t. The containment relation on the instance level can then be defined (see definition):
editor note: Intended meaning: domain: material entity range: spatial region or site (immaterial continuant)
RO_0001900: RO_0001901
in subset: ro-eco

contains
type: ObjectProperty
domain: independent continuant
range: material entity
RO_0001900: RO_0001901
in subset: ro-eco

located in
type: ObjectProperty
domain: independent continuant
range: independent continuant
IAO_0000112: this rat is located in this cage
editor note: Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus
editor note: Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
RO_0001900: RO_0001901
source: http://www.obofoundry.org/ro/#OBO_REL:located_in
definition: a relation between two independent continuants, the target and the location, in which the target is entirely within the location

Axiom
annotated source: located in
annotated property: domain
annotated target: independent continuant
editor note: This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation.

ends during
type: ObjectProperty
created by: David Osumi-Sutherland
has exact synonym: overlaps
in subset: ro-eco

overlaps
type: ObjectProperty
property chain axiom: part of
property chain axiom: has part
IAO_0000114: IAO_0000125
RO_0001900: RO_0001901
in subset: ro-eco

capable of
type: ObjectProperty
domain: material entity
range: process
IAO_0000114: IAO_0000125
IAO_0000119: http://www.ncbi.nlm.nih.gov/pubmed/20123131
IAO_0000119: http://www.ncbi.nlm.nih.gov/pubmed/21208450
created by: Chris Mungall
has exact synonym: has function realized in
in subset: ro-eco
comment: For compatibility with BFO, this relation has a shortcut definition in which the expression "capable of some P" expands to "bearer_of (some realized_by only P)".
definition: A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process.

surrounded by
type: ObjectProperty
sub property of: adjacent to
inverse of: surrounds
domain: independent continuant
range: independent continuant
IAO_0000114: IAO_0000125
RO_0001900: RO_0001901
created by: Chris Mungall

adjacent to
type: ObjectProperty
type: SymmetricProperty
domain: independent continuant
range: independent continuant
IAO_0000114: IAO_0000125
editor note: This relation acts as a join point with BSPO
RO_0001900: RO_0001901
created by: Chris Mungall
definition: x adjacent to y if and only if x and y share a boundary.

surrounds
type: ObjectProperty
sub property of: adjacent to
domain: independent continuant
range: independent continuant
IAO_0000114: IAO_0000125
RO_0001900: RO_0001901
created by: Chris Mungall
in subset: RO_0002259

ends
type: ObjectProperty
sub property of: part of
inverse of: ends with
IAO_0000114: IAO_0000125
created by: Chris Mungall
in subset: ro-eco

ends with
type: ObjectProperty
sub property of: has part
IAO_0000114: IAO_0000125
created by: Chris Mungall
has exact synonym: finished by
in subset: ro-eco

has input
type: ObjectProperty
sub property of: has participant
domain: process
range: material entity
IAO_0000114: IAO_0000125
created by: Chris Mungall
has exact synonym: consumes
in subset: ro-eco

has output
type: ObjectProperty
sub property of: has participant
inverse of: output of
domain: process
range: continuant
property chain axiom: ends with
IAO_0000114: IAO_0000125
created by: Chris Mungall
has exact synonym: produces
in subset: ro-eco

has habitat
type: ObjectProperty
domain: species
range: habitat

contributes to
type: ObjectProperty
editor note: We would like to say if and only if exists c', p' c part_of c' and c' capable_of p and c capable_of p' and p' part_of p then c contributes_to p However, this is not possible in OWL. We instead make this relation a sub-relation of the two chains, which gives us the inference in the one direction.
IAO_0000119: http://www.geneontology.org/GO.annotation.conventions.shtml#contributes_to
created by: Chris Mungall
comment: In the context of the Gene Ontology, contributes_to may be used only with classes from the molecular function ontology.

enabled by
type: ObjectProperty
sub property of:
  inverse of: capable of
domain: process
range: material entity
created by: Chris Mungall

output of
type: ObjectProperty
sub property of: participates in
domain: continuant
range: process
created by: Chris Mungall
in subset: RO_0002259
in subset: ro-eco

spatially coextensive with
type: ObjectProperty
sub property of: overlaps
domain: species
range: species
property chain axiom: located in
property chain axiom:
  inverse of: located in
created by: Chris Mungall
comment: This relation is added for formal completeness. It is unlikely to be used in many practical scenarios

interacts with
type: ObjectProperty
type: SymmetricProperty
domain: material entity
domain: species
domain: population
range: material entity
range: species
range: population
IAO_0000112: https://github.com/oborel/obo-relations/wiki/InteractionRelations
editor note: This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact.
editor note: Considering relabeling as 'pairwise interacts with'
created by: Chris Mungall
has exact synonym: in pairwise interaction with
in subset: ro-eco
comment: Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules.
definition: A relationship that holds between two entities in which the processes executed by the two entities are causally connected.

determines
type: ObjectProperty
domain: material entity
range: system
created by: Chris Mungall
in subset: RO_0002259
in subset: ro-eco

has part structure that is capable of
type: ObjectProperty
domain: material entity
property chain axiom: has part
property chain axiom: capable of
IAO_0000112: gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'
IAO_0000115: s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p
created by: Chris Mungall

produces
type: ObjectProperty
inverse of: produced by
domain: material entity
range: material entity
property chain axiom:
  inverse of: occurs in
property chain axiom: has output
IAO_0000114: IAO_0000125
created by: Melissa Haendel
in subset: ro-eco
comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue.

produced by
type: ObjectProperty
domain: material entity
range: material entity
IAO_0000114: IAO_0000125
created by: Melissa Haendel
in subset: ro-eco

has increased levels of
type: ObjectProperty
domain: ecosystem
domain: species
range: biodiversity
range: phenotypic plasticity

is absent
type: ObjectProperty
domain: species
range: area

facilitate
type: ObjectProperty
domain: invasive species
range: alien species

has increased effort level by
type: ObjectProperty
inverse of: increases effort in
domain: defense
range: species

completed invasion phase
type: ObjectProperty
domain: alien species
range: invasion phase

has index
type: ObjectProperty
domain: biodiversity
range: diversity index

is native range to
type: ObjectProperty
sub property of: is range of
inverse of: has native range
domain: area
range: species

has status
type: ObjectProperty
domain: process
range: status

has range
type: ObjectProperty
inverse of: is range of
domain: species
range: area

is in invasion phase
type: ObjectProperty
domain: alien species
range: invasion phase

increases effort in
type: ObjectProperty
domain: species
range: defense

has level of
type: ObjectProperty
domain: species trait

decreases effort in
type: ObjectProperty
inverse of: has decreased effort level by
domain: species
range: defense

is closely related to
type: ObjectProperty
domain: species
range: species
definition: Two species are closely related if they split apart from each other relatively recently during their evolution..

is enemy of
type: ObjectProperty
inverse of: is prey of
domain: species
range: species
comment: enemy in sense of http://www.semanticweb.org/rs/ontologies/INBIO#enemy

has decreased effort level by
type: ObjectProperty
domain: defense
range: species

is enhanced by
type: ObjectProperty
inverse of: enhance
domain: reproduction
domain: growth
domain: defense
range: resource

enhance
type: ObjectProperty
domain: resource
range: reproduction
range: growth
range: defense

is range of
type: ObjectProperty
domain: area
range: species

achieves
type: ObjectProperty
domain: alien species
range: invasion success

has alien range
type: ObjectProperty
sub property of: has range
inverse of: is alien range to
domain: species
range: area
comment: alien range: range in which the species is not commonly found

allocates
type: ObjectProperty
domain: species
range: resource

has area
type: ObjectProperty
domain: system
range: area

has propagule pressure
type: ObjectProperty
domain: alien species
range: propagule pressure

shows changes in species trait
type: ObjectProperty
domain: alien species
range: change

is prey of
type: ObjectProperty
domain: species
range: species

has value
type: ObjectProperty
type: FunctionalProperty
domain: biodiversity
domain: diversity index
domain: propagule pressure
domain: phenotypic plasticity

is similar to
type: ObjectProperty
type: SymmetricProperty
domain: species
range: species

is alien range to
type: ObjectProperty
sub property of: is range of
domain: area
range: species

is against
type: ObjectProperty
domain: defense
range: enemy

has role
type: ObjectProperty
domain: species
range: role

has native range
type: ObjectProperty
sub property of: has range
domain: species
range: area
comment: native range: range in which the species is commonly found

affects
type: ObjectProperty
domain: biotic acceptance
range: native biodiversity
comment: General influence or effect on ecological or biological systems.

analyzes
type: ObjectProperty
domain: community study
range: species interactions
comment: Conducts a detailed examination of the elements or structure of something.

displaces
type: ObjectProperty
domain: invasive weed
range: native vegetation
comment: Refers to the process of pushing out or replacing one species or ecological component by another.

disrupts
type: ObjectProperty
domain: invasion process
range: local ecosystems
comment: Interrupts by causing a disturbance or problem.

drives
type: ObjectProperty
domain: dominance
range: native species decline
comment: Causes or motivates a change or process.

enhances
type: ObjectProperty
domain: detritivore
range: nutrient cycling
comment: Improves or augments a particular ecological or biological property or process.

examines
type: ObjectProperty
domain: invasion biology
range: pathways of species introduction
comment: Studies or investigates a subject or area in detail.

experiences
type: ObjectProperty
domain: original community
range: ecological disruption
comment: Indicates undergoing or being subjected to a particular process or condition.

facilitates
type: ObjectProperty
domain: mutualistic interaction
range: species coexistence
comment: Makes an action or process easy or easier.

hosts
type: ObjectProperty
range: invasive species
comment: Acts as a host for other organisms, often referring to invasive species.

impacts
type: ObjectProperty
domain: generalist herbivore
range: ecosystem dynamics
comment: Describes significant effects on ecosystems or species.

influences
type: ObjectProperty
domain: invasion rate
range: population dynamics
comment: Influences biological or ecological processes.

provides
type: ObjectProperty
domain: invasion pattern
range: dispersal mechanisms
comment: Makes available for use; supplies.

quantifies
type: ObjectProperty
domain: species number
range: ecosystem diversity
comment: Measures or expresses as a quantity.

reduces
type: ObjectProperty
domain: manual removal
range: invasive species populations
comment: Decreases in size, number, or extent.

has measurement value
type: DatatypeProperty
type: FunctionalProperty
range: double
IAO_0000115: A relation between a scalar measurement data item and a number that quantifies it.
editor note: The range should probably not be restricted to "float". It makes sense to set it to "real". However we do not know how this change will affect SPARQL queries, so we have left the range as-is for now.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl

has invasion success likelihood
type: DatatypeProperty
domain: species
range: double
comment: define range 0 to 1

has amount of species
type: DatatypeProperty
type: FunctionalProperty
range: int

has amount of closely related species
type: DatatypeProperty
sub property of: topDataProperty
domain: area
range: int

has specific name
type: DatatypeProperty
sub property of: topDataProperty
domain: species
range: string

biodiversity
type: Class
subclass of: diversity
has db xref: topic 3050
has db xref: D044822
comment: It's the degree of veriation of life forms within a given species, ecosystem, biome, or planet. Source: wikipedia.org
label: biological diversity
definition: The biological variation found in a defined spatial area: can refer to variation at the level of genome, phenotype, species, community or ecosystem.

community dynamics
type: Class
equivalent class: Class
  intersection of: process
  intersection of: Restriction
    on property: affects
    some values from: population
  intersection of: Restriction
    on property: occurs in
    some values from: ecosystem
subclass of: process
disjoint with: environmental system process
disjoint with: human activity
disjoint with: invasion
disjoint with: allocation
comment: The community dynamics is the study of changes over time of the structure of biological communities.

difference
type: Class
subclass of: estimate
comment: It's the difference of any parameter (size, number of deads, number of recruits etc.) between two dates.

diversity index
type: Class
subclass of: ecological measure
comment: It's a quantitative measure that reflects how many different types (such as species) there are in a dataset, and can simultaneously takes into account how evenly the basic units (such as individuals) are distributed among those types. Source: wikipedia.org

fire incidence
type: Class
subclass of: environmental condition
disjoint with: average annual precipitation
disjoint with: mean annual temperature
disjoint with: pH
disjoint with: humidity
disjoint with: nutrient content
comment: The occurrence of burning in ecosystems.

geographical distribution
type: Class
subclass of: range
definition: A geographical region that can include land as well as water.
000133: update definition

growth
type: Class
subclass of: life history trait
disjoint with: longevity
disjoint with: generation length
comment: It's a measure of the changes in population or community size over time.
label: growth rate

death rate
type: Class
equivalent class: Class
  intersection of: life history trait
  intersection of: Restriction
    on property: is mortality of
    some values from: population
subclass of: life history trait
disjoint with: recruitment rate
disjoint with: longevity
disjoint with: generation length
disjoint with: birth rate
comment: It's the number of individuals dead over time.
label: mortality
label: mortality rate

pielou's evenness index
type: Class
subclass of: species evenness index
comment: It's a representation of the evenness and quantifies how equal the community is numerically.

average annual precipitation
type: Class
subclass of: environmental condition
disjoint with: mean annual temperature
disjoint with: pH
disjoint with: humidity
disjoint with: nutrient content
comment: Any product of the condensation of atmospheric water vapour that falls under gravity (http://en.wikipedia.org/wiki/Precipitation)
comment: Qualquer produto da condensação do vapor de água atmosférico que cai sob efeito da gravidade. @pt
label: precipitation
label: rainfall

recruitment rate
type: Class
subclass of: life history trait
disjoint with: longevity
disjoint with: generation length
comment: It's the rate on which new individuals establishes in a certain community either by new born individuals or immigration.
label: recruitment

mean annual relative humidity
type: Class
subclass of: humidity
comment: Quantidade relativa de vapor de água na atmosfera @pt
comment: The relative amount of whater vapour in the atmosphere
label: relative humidity

simpson's index
type: Class
subclass of: species diversity index
comment: The simplest measure of the character of a community that takes into account both the abundance (or biomass) patterns and the species richness (Begon et al., 2006).

Sørensen–dice index
type: Class
subclass of: species diversity index
label: Sørensen’s similarity coefficient
label: sorensen's similarity index

species evenness
type: Class
subclass of: biodiversity
disjoint with: species richness
comment: Evenness is simply a measure of how similar specie are in their abundances.

species richness
type: Class
subclass of: biodiversity
comment: the number of differnet species represented in an ecological community, landscape or region

mean annual temperature
type: Class
subclass of: environmental condition
disjoint with: pH
disjoint with: humidity
disjoint with: nutrient content
comment: It is a measure of the thermal energy per particle of matter or radiation; it is measured by a thermometer, which may be calibrated in any of various temperature scales, Celsius, Fahrenheit, Kelvin, etc (http://en.wikipedia.org/wiki/Temperature).
label: temperature

shannon's diversity index
type: Class
subclass of: species diversity index

continuant
type: Class
editor note: BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240
editor note: Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants
definition: A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])
definition: An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts.
definition: if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])
definition: if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])
definition: if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])

independent continuant
type: Class
subclass of: continuant
disjoint with: specifically dependent continuant
disjoint with: generically dependent continuant
IAO_0000112: a spatial region
IAO_0000112: an organism
definition: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything.
definition: For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])
definition: For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])

specifically dependent continuant
type: Class
subclass of: continuant
disjoint with: generically dependent continuant
definition: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same.

site
type: Class
subclass of: conceptual entity
disjoint with: impact
disjoint with: phenotype
disjoint with: benefit
disjoint with: event
disjoint with: status
disjoint with: taxon
disjoint with: system
disjoint with: propagule pressure
disjoint with: invasion phase
disjoint with: estimate
disjoint with: trait
disjoint with: invasion success

generically dependent continuant
type: Class
subclass of: continuant
definition: A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time.

material entity
type: Class
subclass of: independent continuant
IAO_0000112: a hurricane
IAO_0000112: a puff of smoke
IAO_0000112: a sea wave
IAO_0000112: a tornado
editor note: BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60
editor note: BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity.
editor note: BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here.
has exact synonym: material
definition: A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002])
definition: An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time.
definition: Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])
definition: every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])

water
type: Class
subclass of: environmental material
disjoint with: permafrost
disjoint with: soil
disjoint with: sediment
disjoint with: clay
disjoint with: silt
disjoint with: sand
disjoint with: organic material
disjoint with: metallic material

geographic feature
type: Class
subclass of: material entity
disjoint with: collection of organisms
disjoint with: organism
disjoint with: resource
has db xref: https://en.wikipedia.org/wiki/Geographic_feature
has exact synonym: macroscopic spatial feature
in subset: envoPolar
comment: May appear on a map.

anthropogenic geographic feature
type: Class
equivalent class: Class
  intersection of: geographic feature
  intersection of: Restriction
    on property: output of
    some values from: human activity
subclass of: geographic feature
has db xref: FTT:78
has db xref: TGN:50001
has related synonym: man-made feature
has related synonym: manmade feature
definition: An anthropogenic geographic feature is a geographic feature resulting from the influence of human beings on nature.

hydrographic feature
type: Class
equivalent class: Class
  intersection of: geographic feature
  intersection of: Restriction
    on property: adjacent to
    some values from: body of water
subclass of: geographic feature
has db xref: FTT:131
has db xref: FTT:280
has db xref: FTT:711
has db xref: FTT:761
has db xref: FTT:824
has db xref: FTT:825
has db xref: FTT:826
has db xref: FTT:827
has db xref: FTT:828
has db xref: FTT:829
has db xref: Geonames:H.OVF
has related synonym: fluvial feature
in subset: envoPolar
definition: A geographical feature associated with water.

Axiom
annotated source: hydrographic feature
annotated property: hasRelatedSynonym
annotated target: fluvial feature
has db xref: ADL:FTT

ocean
type: Class
subclass of: body of water
disjoint with: sea
disjoint with: lake
disjoint with: estuary
has alternative id: LTER:695
has db xref: EcoLexicon:ocean
has db xref: FTT:1019
has db xref: FTT:943
has db xref: Geonames:H.OCN
has db xref: SWEETRealm:Ocean
has db xref: TGN:21102
has db xref: https://en.wikipedia.org/wiki/Ocean
has related synonym: ocean region
in subset: envoMarine
in subset: envoPolar
definition: A marine water body which is constitutes the majority of an astronomical body's hydrosphere.

Axiom
annotated source: ocean
annotated property: hasAlternativeId
annotated target: LTER:695
has db xref: http://129.24.124.196/vocab/vocab/index.php

Axiom
annotated source: ocean
annotated property: hasRelatedSynonym
annotated target: ocean region
has db xref: ADL:FTT

sea
type: Class
subclass of: body of water
disjoint with: lake
disjoint with: estuary
has db xref: EcoLexicon:sea
has db xref: FTT:233
has db xref: FTT:830
has db xref: Geonames:H.SEA
has db xref: TGN:21103
has db xref: https://en.wikipedia.org/wiki/Sea
has narrow synonym: channel
has narrow synonym: closed sea
has narrow synonym: marginal sea
has narrow synonym: open sea
has narrow synonym: open sound
has narrow synonym: open water
has OBO namespace: ENVO
id: ENVO:00000016
in subset: envoMarine
in subset: envoPolar
definition: A large expanse of saline water usually connected with an ocean.

Axiom
annotated source: sea
annotated property: hasNarrowSynonym
annotated target: closed sea
has db xref: USGS:SDTS

Axiom
annotated source: sea
annotated property: hasNarrowSynonym
annotated target: marginal sea
has db xref: USGS:SDTS

Axiom
annotated source: sea
annotated property: hasNarrowSynonym
annotated target: open sea
has db xref: USGS:SDTS

Axiom
annotated source: sea
annotated property: hasNarrowSynonym
annotated target: open sound
has db xref: USGS:SDTS

Axiom
annotated source: sea
annotated property: hasNarrowSynonym
annotated target: open water
has db xref: USGS:SDTS

saline hydrographic feature
type: Class
subclass of: hydrographic feature
has OBO namespace: ENVO
id: ENVO:00000017
definition: A geographical feature associated with water with a halinity above 30 ppt (roughly 35 g/L).

saline lake
type: Class
subclass of: lake
has db xref: FTT:221
has db xref: FTT:907
has db xref: Geonames:H.LKN
has db xref: Geonames:H.LKSN
has db xref: TGN:21116
has db xref: https://en.wikipedia.org/wiki/Saline_lake
has exact synonym: salt lake
has related synonym: salina
has related synonym: soda lake
definition: A lake whose water contains a considerable concentration of dissolved salts.

Axiom
annotated source: saline lake
annotated property: hasExactSynonym
annotated target: salt lake
has db xref: USGS:SDTS

Axiom
annotated source: saline lake
annotated property: hasRelatedSynonym
annotated target: salina
has db xref: USGS:SDTS

lake
type: Class
subclass of: body of water
disjoint with: estuary
has alternative id: LTER:278
has db xref: EcoLexicon:lake
has db xref: FTT:221
has db xref: FTT:704
has db xref: FTT:909
has db xref: Geonames:H.LK
has db xref: Geonames:H.LKS
has db xref: SPIRE:Lake_or_pond
has db xref: SWEETRealm:Lake
has db xref: TGN:21114
has db xref: TGN:21115
has narrow synonym: catch basin
has narrow synonym: open water
has narrow synonym: tarn
has related synonym: broad
has related synonym: llyn
has related synonym: loch
has related synonym: lochan
has related synonym: lough
has related synonym: mere
has related synonym: mortlake
has related synonym: pasteuer lake
in subset: envoPolar
definition: A body of water or other liquid of considerable size contained in a depression on a landmass.

Axiom
annotated source: lake
annotated property: hasAlternativeId
annotated target: LTER:278
has db xref: http://129.24.124.196/vocab/vocab/index.php

Axiom
annotated source: lake
annotated property: hasNarrowSynonym
annotated target: catch basin
has db xref: USGS:SDTS

Axiom
annotated source: lake
annotated property: hasNarrowSynonym
annotated target: open water
has db xref: USGS:SDTS

Axiom
annotated source: lake
annotated property: hasNarrowSynonym
annotated target: tarn
has db xref: ADL:FTT

Axiom
annotated source: lake
annotated property: hasRelatedSynonym
annotated target: lochan
has db xref: ADL:FTT

Axiom
annotated source: lake
annotated property: hasRelatedSynonym
annotated target: mortlake
has db xref: USGS:SDTS

Axiom
annotated source: lake
annotated property: hasRelatedSynonym
annotated target: pasteuer lake
has db xref: USGS:SDTS

wetland area
type: Class
equivalent class: Class
  intersection of: vegetated area
  intersection of: Restriction
    on property: overlaps
    some values from: wetland ecosystem
subclass of: vegetated area
subclass of: Restriction
  on property: overlaps
  some values from: wetland ecosystem
has related synonym: wetland region
definition: An vegetated area which overlaps a wetland ecosystem.

Axiom
annotated source: wetland area
annotated property: hasRelatedSynonym
annotated target: wetland region
has db xref: NASA:earthrealm

estuary
type: Class
equivalent class: Class
  intersection of: body of water
  intersection of: Restriction
    on property: adjacent to
    some values from: ocean
subclass of: body of water
has alternative id: LTER:182
has broad synonym: mouth
has db xref: EcoLexicon:estuary
has db xref: FTT:234
has db xref: Geonames:H.ESTY
has db xref: SWEETRealm:Estuary
has db xref: TGN:21152
has db xref: https://en.wikipedia.org/wiki/Estuary
has related synonym: inlet
definition: A semi-enclosed coastal body of water with one or more rivers or streams flowing into it, and with a free connection to the open sea.

Axiom
annotated source: estuary
annotated property: hasAlternativeId
annotated target: LTER:182
has db xref: https://vocab.lternet.edu/vocab/vocab/index.php

Axiom
annotated source: estuary
annotated property: hasBroadSynonym
annotated target: mouth
has db xref: USGS:SDTS

Axiom
annotated source: estuary
annotated property: hasRelatedSynonym
annotated target: inlet
has db xref: USGS:SDTS

body of water
type: Class
equivalent class: Class
  intersection of: geographical region
  intersection of: Restriction
    on property: has part
    some values from: liquid water
subclass of: geographical region
has broad synonym: hydrographic feature
has db xref: EcoLexicon:waterbody
has db xref: FTT:131
has db xref: FTT:280
has db xref: FTT:827
has db xref: SWEETRealm:BodyOfWater
has db xref: TGN:21100
has db xref: TGN:21101
has db xref: https://en.wikipedia.org/wiki/Water_body
has exact synonym: aquatic feature
has exact synonym: bodies of water
has exact synonym: waterbody
comment: https://en.wikipedia.org/wiki/ The term body of water most often refers to large accumulations of water, such as oceans, seas, and lakes, but it includes smaller pools of water such as ponds, wetlands, or more rarely, puddles. A body of water does not have to be still or contained; Rivers, streams, canals, and other geographical features where water moves from one place to another are also considered bodies of water.
label: water body
definition: An accumulation of water of varying size.

Axiom
annotated source: body of water
annotated property: hasBroadSynonym
annotated target: hydrographic feature
has db xref: ADL:FTT

Axiom
annotated source: body of water
annotated property: hasExactSynonym
annotated target: bodies of water
has db xref: Getty:TGN

glacial feature
type: Class
subclass of: environmental feature
has db xref: EcoLexicon:ice
has db xref: FTT:648
has db xref: SWEETRealm:LandIce
has db xref: TGN:21410
has narrow synonym: glacer
has related synonym: Ice
has related synonym: LandIce
has related synonym: glacial landform
has related synonym: glacier feature
in subset: envoPolar
comment: Likely to be depopulated and "glacial" made into a quality or similar.
definition: A hydrographic feature characterized by the dominance of snow or ice.

Axiom
annotated source: glacial feature
annotated property: hasNarrowSynonym
annotated target: glacer
has db xref: ADL:FTT

Axiom
annotated source: glacial feature
annotated property: hasRelatedSynonym
annotated target: Ice
has db xref: NASA:earthrealm

Axiom
annotated source: glacial feature
annotated property: hasRelatedSynonym
annotated target: LandIce
has db xref: NASA:earthrealm

Axiom
annotated source: glacial feature
annotated property: hasRelatedSynonym
annotated target: glacial landform
has db xref: Getty:TGN

Axiom
annotated source: glacial feature
annotated property: hasRelatedSynonym
annotated target: glacier feature
has db xref: ADL:FTT

permafrost
type: Class
subclass of: environmental material
disjoint with: sediment
disjoint with: clay
disjoint with: silt
disjoint with: sand
disjoint with: particulate matter
disjoint with: organic material
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
disjoint with: metallic material
has db xref: EcoLexicon:permafrost
has db xref: LTER:408
has db xref: https://en.wikipedia.org/wiki/Permafrost
has exact synonym: Permafrost
in subset: envoPolar
comment: Ice is not always present, as may be in the case of nonporous bedrock, but it frequently occurs and it may be in amounts exceeding the potential hydraulic saturation of the ground material.
definition: Soil or rock and included ice or organic material at or below the freezing point of water (0 degrees Celsius or 32 degrees Fahrenheit) for two or more years.

Axiom
annotated source: permafrost
annotated property: hasExactSynonym
annotated target: Permafrost
has db xref: NASA:earthrealm

inverse estuary
type: Class
subclass of: estuary
definition: An estuary which is located in regions where evaporation greatly exceeds the inflow of fresh water, forming a zone of maximum salinity towards which both riverine and marine water masses flow, before sinking and spreading along the bottom in both seaward and landward directions.

saline wetland
type: Class
subclass of: wetland area
has OBO namespace: ENVO
id: ENVO:00000240
comment: It would be more correct to say that this has_quality salty or has_part ((soil and water) and has_increased_levels_of salt.

shore
type: Class
equivalent class: Class
  intersection of: land
  intersection of: Restriction
    on property: adjacent to
    some values from: body of water
subclass of: hydrographic feature
subclass of: land
subclass of: Restriction
  on property: adjacent to
  some values from: body of water
disjoint with: marine pelagic feature
has broad synonym: coastal zone
has db xref: EcoLexicon:shore
has db xref: FTT:240
has db xref: FTT:503
has db xref: FTT:504
has db xref: Geonames:T.SHOR
has db xref: SWEETRealm:Shore
has db xref: TGN:21481
has db xref: https://en.wikipedia.org/wiki/Shore
has narrow synonym: shoreface
has related synonym: beach face
has related synonym: foreshore
has related synonym: inshore
has related synonym: rivage
has related synonym: seashore
has related synonym: strand
definition: That part of the land in immediate contact with a body of water including the area between high and low water lines.

Axiom
annotated source: shore
annotated property: hasRelatedSynonym
annotated target: strand
has db xref: USGS:SDTS

Axiom
annotated source: shore
annotated property: hasBroadSynonym
annotated target: coastal zone
has db xref: ADL:FTT

Axiom
annotated source: shore
annotated property: hasNarrowSynonym
annotated target: shoreface
has db xref: USGS:SDTS

Axiom
annotated source: shore
annotated property: hasRelatedSynonym
annotated target: beach face
has db xref: USGS:SDTS

Axiom
annotated source: shore
annotated property: hasRelatedSynonym
annotated target: foreshore
has db xref: USGS:SDTS

Axiom
annotated source: shore
annotated property: hasRelatedSynonym
annotated target: inshore
has db xref: USGS:SDTS

Axiom
annotated source: shore
annotated property: hasRelatedSynonym
annotated target: rivage
has db xref: USGS:SDTS

Axiom
annotated source: shore
annotated property: hasRelatedSynonym
annotated target: seashore
has db xref: USGS:SDTS

rock
type: Class
subclass of: solid environmental material
disjoint with: mineral material
disjoint with: water ice
has db xref: EcoLexicon:rock
has db xref: FTT:1010
has db xref: FTT:145
has db xref: Geonames:T.RK
has db xref: Geonames:T.RKS
has db xref: SWEETRealm:Rock
has db xref: TGN:21444
has db xref: https://en.wikipedia.org/wiki/Rock
has OBO namespace: ENVO
id: ENVO:00001995
comment: From https://en.wikipedia.org/wiki/ [A mineral] is different from a rock, which can be an aggregate of minerals or non-minerals and does not have a specific chemical composition. The exact definition of a mineral is under debate, especially with respect to the requirement a valid species be abiogenic, and to a lesser extent with regards to it having an ordered atomic structure.
definition: A rock is a naturally occurring solid aggregate of one or more minerals or mineraloids.

soil
type: Class
subclass of: environmental material
subclass of: Restriction
  on property: has part
  some values from: clay
subclass of: Restriction
  on property: has part
  some values from: silt
subclass of: Restriction
  on property: has part
  some values from: sand
subclass of: Restriction
  on property: has part
  some values from: organic material
subclass of: Restriction
  on property: has part
  some values from: mineral material
subclass of: Restriction
  on property: has quality
  some values from: porous
disjoint with: particulate matter
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
disjoint with: metallic material
editor note: The various 'has part' and 'has quality' relations may not hold true for all soils; however, I have yet to find counter examples. Require input from a pedologist or similar. [pbuttigieg]
has broad synonym: regolith
has db xref: LTER:535
has db xref: SPIRE:Soil
has db xref: SWEETRealm:Soil
has db xref: https://en.wikipedia.org/wiki/Soil
in subset: EnvO-Lite-GSC
comment: 'In engineering terms, soil is referred to as regolith, or loose rock material that lies above the 'solid geology'. Soil is commonly referred to as "earth" or "dirt"; technically, the term "dirt" should be restricted to displaced soil.' https://en.wikipedia.org/wiki/Soil " The upper limit of soil is the boundary between soil and air, shallow water, live plants, or plant materials that have not begun to decompose. Areas are not considered to have soil if the surface is permanently covered by water too deep (typically more than 2.5 meters) for the growth of rooted plants. The lower boundary that separates soil from the nonsoil underneath is most difficult to define. Soil consists of horizons near the Earth's surface that, in contrast to the underlying parent material, have been altered by the interactions of climate, relief, and living organisms over time. Commonly, soil grades at its lower boundary to hard rock or to earthy materials virtually devoid of animals, roots, or other marks of biological activity. For purposes of classification, the lower boundary of soil is arbitrarily set at 200 cm." Soil taxonomy, 2nd Ed., quoted in http://www.nrcs.usda.gov/wps/portal/nrcs/detail/soils/edu/?cid=nrcs142p2_054280
definition: Soil is an environmental material which is primarily composed of minerals, varying proportions of sand, silt, and clay, organic material such as humus, gases, liquids, and a broad range of resident micro- and macroorganisms.

air
type: Class
subclass of: gaseous environmental material
subclass of: Restriction
  on property: has part
  some values from: water vapour
has db xref: EcoLexicon:air
has db xref: LTER:18
has db xref: SWEETRealm:Air
has db xref: https://en.wikipedia.org/wiki/Air
in subset: EnvO-Lite-GSC
in subset: envoPolar
definition: The mixture of gases (roughly (by molar content/volume: 78% nitrogen, 20.95% oxygen, 0.93% argon, 0.038% carbon dioxide, trace amounts of other gases, and a variable amount (average around 1%) of water vapor) that surrounds the planet Earth.

liquid water
type: Class
equivalent class: Class
  intersection of: water
  intersection of: liquid environmental material
subclass of: water
subclass of: liquid environmental material
has broad synonym: water
has db xref: EcoLexicon:water
has db xref: LTER:617
has db xref: https://en.wikipedia.org/wiki/Water
definition: An environmental material primarily composed of dihydrogen oxide in its liquid form.

sediment
type: Class
subclass of: environmental material
subclass of: Restriction
  on property: has quality
  some values from: porous
subclass of: Restriction
  on property: has quality
  some values from: granular
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
has db xref: EcoLexicon:sediment
has db xref: EcoLexicon:sedimentation
has db xref: LTER:492
has db xref: LTER:493
has db xref: SWEETRealm:Sediment
has db xref: https://en.wikipedia.org/wiki/Sediment
in subset: EnvO-Lite-GSC
in subset: envoPolar
comment: It is recommended to use a combination of sediment terms to describe a more specific sediment type.
definition: Sediment is an environmental substance comprised of any particulate matter that can be transported by fluid flow and which eventually is deposited as a layer of solid particles on the bedor bottom of a body of water or other liquid.

environmental feature
type: Class
equivalent class: Class
  intersection of: material entity
  intersection of: Restriction
    on property: determines
    some values from: environmental system
subclass of: material entity
subclass of: Restriction
  on property: determines
  some values from: environmental system
has OBO namespace: ENVO
id: ENVO:00002297
comment: A material entity determines an environmental system when its removal would cause the collapse of that system. For example, a seamount determines a seamount environment, acting as its 'hub'. This class is currently being aligned to the Basic Formal Ontology. Following this alignment, its definition and the definitions of its subclasses will be revised.
definition: A material entity which determines an environmental system.

clay
type: Class
equivalent class: Class
  intersection of: environmental material
  intersection of: Restriction
    on property: has quality
    some values from: porous
subclass of: environmental material
subclass of: Restriction
  on property: has quality
  some values from: porous
disjoint with: silt
disjoint with: sand
disjoint with: particulate matter
disjoint with: organic material
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
disjoint with: metallic material
disjoint with: ice
has db xref: EcoLexicon:clay
has db xref: SWEETRealm:Clay
has db xref: https://en.wikipedia.org/wiki/Clay
definition: A group of hydrous aluminium phyllosilicate (phyllosilicates being a subgroup of silicate minerals) minerals (see clay minerals), that are typically less than 2 micrometres in diameter. Clay consists of a variety of phyllosilicate minerals rich in silicon and aluminium oxides and hydroxides which include variable amounts of structural water.

enriched soil
type: Class
equivalent class: Class
  intersection of: soil
  intersection of: Restriction
    on property: has increased levels of
    some values from: material entity
subclass of: soil
subclass of: Restriction
  on property: has increased levels of
  some values from: material entity
has OBO namespace: ENVO
id: ENVO:00003082
comment: This could be demoted to an inferred class if issues with double inheritance arise.
definition: A portion of enriched soil is a portion of soil with elevated levels of some material entity.

environmental material
type: Class
subclass of: resource
has exact synonym: portion of environmental material
comment: Everything under this parent must be a mass noun. All subclasses are to be understood as being composed primarily of the named entity, rather than restricted to that entity. For example, "ENVO:water" is to be understood as "environmental material composed primarly of some CHEBI:water". This class is currently being aligned to the Basic Formal Ontology. Following this alignment, its definition and the definitions of its subclasses will be revised.
definition: A portion of environmental material is a fiat object part which forms the medium or part of the medium of an environmental system.
definition: A portion of environmental material is a fiat object which forms the medium or part of the medium of an environmental system.

surface layer
type: Class
subclass of: layer
disjoint with: atmosphere
has db xref: EcoLexicon:surface
has db xref: http://sweetontology.net/reprSpaceGeometry/Surface
has db xref: https://en.wikipedia.org/wiki/Surface
comment: This class is distinct from a geometric surface, which is two-dimensional. The idea of "uppermost" may be problematic. Further, the definition of layer (the superclass of surface in rev 133) references surface. This may be another issue. Perhaps this can be made into an inferred class using 'bounding layer of' some material entity, note that 'bounding layer' implies containment, which may not be valid here.
definition: A layer of some material entity which is adjacent to one or more of its external boundaries and directly interacts with its immediate surroundings.

silt
type: Class
subclass of: environmental material
subclass of: Restriction
  on property: has quality
  some values from: porous
subclass of: Restriction
  on property: has quality
  some values from: granular
disjoint with: sand
disjoint with: particulate matter
disjoint with: organic material
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
disjoint with: ice
has db xref: EcoLexicon:silt
has db xref: SWEETRealm:Silt
has db xref: https://en.wikipedia.org/wiki/Silt
comment: https://en.wikipedia.org/wiki/ In the Udden-Wentworth scale (due to Krumbein), silt particles range between 0.0039 to 0.0625 mm, larger than clay but smaller than sand particles. ISO 14688 grades silts between 0.002 mm and 0.063 mm. In actuality, silt is chemically distinct from clay, and unlike clay, grains of silt are approximately the same size in all dimensions; furthermore, their size ranges overlap. Clays are formed from thin plate-shaped particles held together by electrostatic forces, so present a cohesion. According to the U.S. Department of Agriculture Soil Texture Classification system, the sand-silt distinction is made at the 0.05 mm particle size. The USDA system has been adopted by the Food and Agriculture Organization (FAO). In the Unified Soil Classification System (USCS) and the AASHTO Soil Classification system, the sand-silt distinction is made at the 0.075 mm particle size (i.e., material passing the #200 sieve). Silts and clays are distinguished mechanically by their plasticity.
definition: Silt is granular material of a size somewhere between sand and clay whose mineral origin is quartz and feldspar.

sand
type: Class
subclass of: environmental material
subclass of: Restriction
  on property: derives from
  some values from: rock
disjoint with: particulate matter
disjoint with: organic material
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
disjoint with: metallic material
disjoint with: ice
has db xref: EcoLexicon:sand
has db xref: LTER:484
has db xref: SWEETRealm:Sand
has db xref: https://en.wikipedia.org/wiki/Sand
has OBO namespace: ENVO
id: ENVO:01000017
definition: A naturally occurring granular material composed of finely divided rock and mineral particles.

marine pelagic feature
type: Class
subclass of: hydrographic feature
created by: ORCID:0000-0002-4366-3088
in subset: envoPolar
definition: A prominent or distinctive aspect, quality, or characteristic of environments occurring within the marine water column.

particulate matter
type: Class
equivalent class: Class
  intersection of: environmental material
  intersection of: Restriction
    on property: surrounded by
    some values from: Class
      union of: gaseous environmental material
      union of: liquid environmental material
subclass of: environmental material
subclass of: Class
  intersection of: Restriction
    on property: surrounded by
    some values from: Class
      union of: gaseous environmental material
      union of: liquid environmental material
disjoint with: organic material
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: solid environmental material
disjoint with: liquid environmental material
disjoint with: metallic material
disjoint with: ice
editor note: Subclasses should be assigned by inference.
in subset: envoAtmo
in subset: envoPolar
definition: Particulate material is an environmental material which is composed of microscopic portions of solid or liquid material suspended in another environmental material.

organic material
type: Class
subclass of: environmental material
disjoint with: snow
disjoint with: gaseous environmental material
disjoint with: metallic material
disjoint with: ice
created by: ORCID:0000-0002-4366-3088
has db xref: EcoLexicon:organic_material
has exact synonym: biomass
definition: Environmental material derived from living organisms and composed primarily of one or more biomacromolecules.

environmental condition
type: Class
equivalent class: Class
  intersection of: trait
  intersection of: Restriction
    on property: characteristic for
    some values from: environmental system
subclass of: trait
disjoint with: organism characteristic
disjoint with: population group characteristic
disjoint with: morphological feature
disjoint with: genetic characteristic
disjoint with: functional trait
disjoint with: species trait
disjoint with: life history trait
IAO_0000114: IAO_0000121
created by: ORCID:0000-0002-4366-3088
created by: pbuttigi
has exact synonym: envrionmental characteristic
has OBO namespace: ENVO
id: ENVO:01000203
in subset: envoPolar
comment: A condition defines a restricted range of a given quality or combination of qualities. If an environment class, E, has_condition C, then all qualities listed in C are restricted to the ranges defined in C in E. This is not intended as a logical conditional.
comment: An abiotic environmental factor that influences the functioning of living organisms (Begon et al., 2006).
comment: Experimental class created in EnvO. A condition defines a restricted range of a given quality or combination of qualities. If an environment class, E, has_condition C, then all qualities listed in C are restricted to the ranges defined in C in E. This is not intended as a logical conditional.
definition: An environmental condition is a range of a determinate quality or combination of qualities that are present in an environmental system.

environmental system
type: Class
subclass of: system
has db xref: EcoLexicon:environment
has exact synonym: environment
comment: In ENVO's alignment with the Basic Formal Ontology, this class is being considered as a subclass of a proposed BFO class "system". The relation "environed_by" is also under development. Roughly, a system which includes a material entity (at least partially) within its site and causally influences that entity may be considered to environ it. Following the completion of this alignment, this class' definition and the definitions of its subclasses will be revised.
comment: The environment of an organism consists of all those factors and phenomena outside the organism that influence it, whether these are physical and chemical (abiotic) or other organisms (biotic) (Begon et al., 2006)
definition: A system which has the disposition to environ one or more material entities.

mineral material
type: Class
subclass of: solid environmental material
disjoint with: water ice
editor note: Look for "mineral" in a chemical or geochemical ontology to formalise the composed primarily of link. From https://en.wikipedia.org/wiki/ [A mineral] is different from a rock, which can be an aggregate of minerals or non-minerals and does not have a specific chemical composition. The exact definition of a mineral is under debate, especially with respect to the requirement a valid species be abiogenic, and to a lesser extent with regards to it having an ordered atomic structure.
created by: ORCID:0000-0002-4366-3088
has db xref: LTER:341
definition: A mineral material is an environmental material which is primarily composed of some substance that is naturally occurring, solid and stable at room temperature, representable by a chemical formula, usually abiogenic, and that has an ordered atomic structure.

water vapour
type: Class
equivalent class: Class
  intersection of: gaseous environmental material
  intersection of: Restriction
    on property: contains
    some values from: water
subclass of: gaseous environmental material
created by: ORCID:0000-0002-4366-3088
has exact synonym: aqueous vapor
has exact synonym: aqueous vapour
has OBO namespace: ENVO
id: ENVO:01000266
comment: Perhaps a better relation between water vapour and water can be found in or added to RO?
definition: Water vapour is a vapour which is the gas phase of water.

Axiom
annotated source: water vapour
annotated property: hasExactSynonym
annotated target: aqueous vapor
has db xref: https://en.wikipedia.org/wiki/Water_vapor

Axiom
annotated source: water vapour
annotated property: hasExactSynonym
annotated target: aqueous vapour
has db xref: https://en.wikipedia.org/wiki/Water_vapor

atmosphere
type: Class
subclass of: layer
disjoint with: solid layer
created by: ORCID:0000-0002-4366-3088
has db xref: LTER:48
definition: An atmosphere is a layer of gases surrounding a material body of sufficient mass that is held in place by the gravity of the body.

atmospheric water vapour
type: Class
equivalent class: Class
  intersection of: water vapour
  intersection of: Restriction
    on property: part of
    some values from: atmosphere
subclass of: water vapour
subclass of: Restriction
  on property: part of
  some values from: atmosphere
created by: ORCID:0000-0002-4366-3088
has exact synonym: atmospheric water vapor
has OBO namespace: ENVO
id: ENVO:01000268
in subset: envoPolar
definition: Atmospheric water vapour is water vapour that is part of an atmosphere.

Axiom
annotated source: atmospheric water vapour
annotated property: hasExactSynonym
annotated target: atmospheric water vapor
has db xref: https://en.wikipedia.org/wiki/Water_vapor

ecoregion
type: Class
subclass of: environmental zone
subclass of: Restriction
  on property: part of
  some values from: ecozone
disjoint with: atmospheric zone
created by: ORCID:0000-0002-4366-3088
in subset: envoPolar
comment: Unlike biomes, ecoregions are geographically defined entities. ENVO's sister project, GAZ, contains terms for instances of ecoregions (e.g. Beringia lowland tundra). Requests for new terms should be directed to GAZ. ENVO will only contain this top-level class. The class' definition is preliminary and will be aligned to BFO.
definition: A large unit of land or water containing a geographically distinct assemblage of species, natural communities, and environmental conditions.

water ice
type: Class
equivalent class: Class
  intersection of: water
  intersection of: solid environmental material
subclass of: water
subclass of: solid environmental material
created by: ORCID:0000-0002-4366-3088
has db xref: LTER:262
has related synonym: ice
in subset: envoPolar
definition: Ice is water frozen into a solid state. It can appear transparent or opaque bluish-white color, depending on the presence of impurities or air inclusions. The addition of other materials such as soil may further alter its appearance.

Axiom
annotated source: water ice
annotated property: hasRelatedSynonym
annotated target: ice
has db xref: http://www.eionet.europa.eu/gemet/concept/4131

ecozone
type: Class
subclass of: environmental zone
subclass of: Restriction
  on property: part of
  some values from: biosphere
disjoint with: atmospheric zone
created by: ORCID:0000-0002-4366-3088
in subset: envoPolar
comment: 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.
definition: 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.

layer
type: Class
subclass of: geographic feature
subclass of: Restriction
  on property: has quality
  some values from: laminar
created by: ORCID:0000-0002-4366-3088
in subset: envoPolar
comment: Preliminary definition.
definition: A layer is a quantity of some material which is spatially continuous, has comparable thickness, and usually covers some surface.

marine layer
type: Class
equivalent class: Class
  intersection of: aquatic layer
  intersection of: Restriction
    on property: part of
    some values from: Class
      union of: ocean
      union of: sea
subclass of: marine pelagic feature
subclass of: aquatic layer
subclass of: Restriction
  on property: part of
  some values from: Class
    union of: ocean
    union of: sea
created by: ORCID:0000-0002-4366-3088
in subset: envoMarine
in subset: envoPolar
definition: A layer that is part of a marine water body.

endolithic environment
type: Class
equivalent class: Class
  intersection of: environmental system
  intersection of: Restriction
    on property: surrounded by
    some values from: rock
subclass of: environmental system
subclass of: Restriction
  on property: surrounded by
  some values from: rock
disjoint with: marine environment
definition: An endolithic environment is an environment that exists within solid rock.

cold environment
type: Class
subclass of: environmental system
in subset: envoPolar
comment: The definition of the deprecated 'cold temperature habitat' class, which this class was derived from, quotes an upper threshold of 15 degrees Celsius for 'coldness'.
definition: An environment which has a lower temperature than some local or global average.

anthropogenic environment
type: Class
equivalent class: Class
  intersection of: environmental system
  intersection of: Restriction
    on property: output of
    some values from: human activity
subclass of: environmental system
disjoint with: natural environment
comment: Unsatisfactory definition here. Must consider the threshold that makes an environmental system anthropogenic.
definition: An anthropogenic environment is an environmental system which is the product of human activity.

high osmolarity environment
type: Class
subclass of: environmental system determined by a quality
deprecated: true
definition: A high osmolarity environment is an environment in which entities are exposed to high concentrations of solutes.

aquatic environment
type: Class
subclass of: environmental system
subclass of: environmental system determined by a quality
subclass of: environmental system determined by a material
definition: An environment whose dynamics are strongly influenced by water.

marine environment
type: Class
subclass of: environmental system
in subset: envoPolar
definition: A marine environment and enviroment which is determined by a marine water body.

aquatic layer
type: Class
subclass of: liquid layer
in subset: envoPolar
comment: This class will eventually be populated by inference, and its asserted subclasses removed.
definition: A layer in a water mass, itself composed primarily of water.

snow
type: Class
equivalent class: Class
  intersection of: environmental material
  intersection of: Restriction
    on property: output of
    some values from: snowfall
subclass of: environmental material
subclass of: Restriction
  on property: output of
  some values from: snowfall
disjoint with: gaseous environmental material
disjoint with: liquid environmental material
disjoint with: metallic material
in subset: envoPolar
definition: Snow is an environmental material which is primarily composed of flakes of crystalline water ice.

environmental zone
type: Class
equivalent class: Class
  intersection of: zone
  intersection of: Restriction
    on property: part of
    some values from: environmental system
subclass of: zone
subclass of: Restriction
  on property: part of
  some values from: environmental system
has related synonym: environmental area
in subset: envoPolar
comment: Formerly, this class was an experimental class and a subclass of "environmental feature". It is now aligned to BFO. The class was not obsoleted as the core semantics maintained their stability through its transition.
definition: A site which has its extent determined by the presence or influence of one or more components of an environmental system or the processes occurring therein.

disturbed ecosystem
type: Class
equivalent class: Class
  intersection of: ecosystem
  intersection of: Restriction
    on property: is affected by
    some values from: disturbance
subclass of: ecosystem
disjoint with: undisturbed ecosystem
in subset: envoPolar
comment: This is often used by plant collectors when early successional species are observed in an area.
definition: An ecosystem which has been subject to a perturbation, that is, the ecosystem has undergone a pronounced change in response to a change in environmental conditions or other perturbation.

hydrological condensation process
type: Class
equivalent class: Class
  intersection of: condensation process
  intersection of: hydrological process
  intersection of: Restriction
    on property: has input
    some values from: atmospheric water vapour
  intersection of: Restriction
    on property: has output
    some values from: liquid water
subclass of: condensation process
subclass of: hydrological process
subclass of: Restriction
  on property: has input
  some values from: atmospheric water vapour
subclass of: Restriction
  on property: has output
  some values from: liquid water
disjoint with: water flow process
has broad synonym: condensation
in subset: envoPolar
comment: "process" is included in the label to make it clear that we are not referring to the condensed material (e.g. water droplets, window fog)
definition: Hydrological condensation is a process in which atmospheric water vapour undergoes a phase transition from the gas phase to the liquid phase.

coast
type: Class
equivalent class: Class
  intersection of: environmental zone
  intersection of: Class
    intersection of: Restriction
      on property: overlaps
      some values from: land
    intersection of: Restriction
      on property: overlaps
      some values from: Class
        union of: ocean
        union of: sea
        union of: lake
subclass of: environmental zone
subclass of: Restriction
  on property: overlaps
  some values from: land
subclass of: Restriction
  on property: overlaps
  some values from: Class
    union of: ocean
    union of: sea
    union of: lake
disjoint with: atmospheric zone
comment: Used for both marine and lake coasts. The boundary of the coast is fuzzy and it overlaps both the water body and land in quesiton. Compared to 'shore'
definition: A coast is the area where land meets the sea, ocean, or lake.

hydrological precipitation process
type: Class
equivalent class: Class
  intersection of: precipitation process
  intersection of: Restriction
    on property: has input
    some values from: Class
      intersection of: Class
        intersection of: environmental material
      intersection of: Restriction
        on property: output of
        some values from: hydrological condensation process
has broad synonym: precipitation
comment: "process" is included in the label to make it clear that we are not referring to the precipitated material (e.g. snow, rain, sleet)
definition: Hydrological precipitation is a process during which any product of the condensation of atmospheric water vapour is pulled to the planetary surface by gravity.

condensation process
type: Class
equivalent class: Class
  intersection of: material congelation process
  intersection of: Restriction
    on property: has input
    some values from: gaseous environmental material
  intersection of: Restriction
    on property: has output
    some values from: liquid environmental material
subclass of: material congelation process
definition: Condensation is a process during which a gas undergoes a phase transition into a liquid.

habitat
type: Class
subclass of: environmental system
subclass of: Restriction
  on property: part of
  some values from: biosphere
disjoint with: ecosystem
has db xref: EcoLexicon:habitat
has db xref: LTER:238
has db xref: SWEETRealm:Habitat
has db xref: https://en.wikipedia.org/wiki/Habitat
comment: A habitat's specificity to an ecological population differentiates it from other environment classes.
definition: An environmental system which can sustain and allow the growth of an ecological population.

gaseous environmental material
type: Class
subclass of: environmental material
disjoint with: solid environmental material
disjoint with: liquid environmental material
disjoint with: ice
editor note: This class is to be populated by inference.
has narrow synonym: gas
definition: A material entity which is composed of one or more chemical entities and has neither independent shape nor volume but tends to expand indefinitely.

solid environmental material
type: Class
subclass of: environmental material
disjoint with: liquid environmental material
comment: This is a defined class: its subclasses will not be asserted, but filled by inference.
definition: An environmental material which is in a solid state.

liquid environmental material
type: Class
subclass of: environmental material
disjoint with: ice
in subset: envoPolar
comment: This is a defined class: its subclasses will not be asserted, but filled by inference.
definition: An environmental material which is in a liquid state.

biosphere
type: Class
subclass of: environmental system
subclass of: Restriction
  on property: has part
  some values from: collection of organisms
editor note: Whether this class should be grouped with classes such as "hydrosphere" and "cryosphere" requires some discussion.
in subset: envoAstro
in subset: envoPolar
comment: The gravitational sphere of influence referenced in this class' definition is the Hill sphere: a region in which an object dominates the attraction of satellites despite gravitational perturbations.
definition: A biosphere is a part of an astronomical body which includes, as parts, all the living entities within the gravitational sphere of influence of that body, as well as the non-living and dead entities with which they interact.
definition: A biosphere is an environmental system which includes, as parts, all the living entities within the gravitational sphere of influence of an astronomical body, and the non-living and dead entities which they interact with.

cryosphere
type: Class
subclass of: glacial feature
in subset: envoAstro
in subset: envoPolar
comment: This is a very broad and, in practice, poorly defined term. Please consider using or requesting a more specific class.
definition: A cryosphere is that part of a planet which is primarily composed of water is in solid form.

precipitation process
type: Class
subclass of: material transport process
definition: A precipitation process is a process in which a portion of some substance segregates from a material in which that substance or its precursors were dissolved or suspended in and settles due to a force such as gravity or centrifugal force.

snowfall
type: Class
equivalent class: Class
  intersection of: hydrological precipitation process
  intersection of: Restriction
    on property: has participant
    some values from: snow
has exact synonym: snow fall
in subset: environmental_hazards
in subset: envoPolar
definition: A hydrological process in which irregular aggregates of snow fall to a planetary surface.

natural environment
type: Class
subclass of: environmental system
comment: In most contexts, 'natural' is defined by the lack of intervention or influence by humans and their activities. On Earth, most environments fall on a scale between completely natural and anthropised.
alternative label: non-anthropized environment
definition: An environmental system in which minimal to no anthropisation has occurred and non-human agents are the primary determinants of the system's dynamics and composition.

anthropisation
type: Class
equivalent class: Class
  intersection of: anthropogenic ecosystem conversion process
  intersection of: Restriction
    on property: has input
    some values from: natural environment
  intersection of: Restriction
    on property: has output
    some values from: anthropogenic environment
equivalent class: Class
  intersection of: anthropogenic environmental process
  intersection of: Restriction
    on property: has input
    some values from: natural environment
  intersection of: Restriction
    on property: has output
    some values from: anthropogenic environment
subclass of: anthropogenic ecosystem conversion process
subclass of: anthropogenic environmental process
subclass of: Restriction
  on property: has input
  some values from: natural environment
subclass of: Restriction
  on property: has output
  some values from: anthropogenic environment
has exact synonym: anthropization
comment: An area may be classified as anthropized even though it looks natural, such as grasslands that have been deforested by humans. It can be difficult to determine how much a site has been anthropized in the case of urbanization because one must be able to estimate the state of the landscape before significant human action.
definition: A process during which a natural environmental system is altered by human action.

Axiom
annotated source: anthropisation
annotated property: comment
annotated target: An area may be classified as anthropized even though it looks natural, such as grasslands that have been deforested by humans. It can be difficult to determine how much a site has been anthropized in the case of urbanization because one must be able to estimate the state of the landscape before significant human action.
has db xref: https://en.wikipedia.org/wiki/Anthropization

mass liquid flow
type: Class
equivalent class: Class
  intersection of: advective transport process
  intersection of: Restriction
    on property: has participant
    some values from: liquid environmental material
subclass of: advective transport process
subclass of: Restriction
  on property: has participant
  some values from: liquid environmental material
in subset: envoPolar
comment: This class can refer to the flow of any material in a liquid phase.
definition: A process whereby a volume of liquid moves due to a disequilibrium of physical forces.

water flow process
type: Class
equivalent class: Class
  intersection of: mass liquid flow
  intersection of: hydrological process
  intersection of: Restriction
    on property: has participant
    some values from: liquid water
subclass of: mass liquid flow
subclass of: hydrological process
subclass of: Restriction
  on property: has participant
  some values from: liquid water
in subset: environmental_hazards
definition: A process during which a volume of water is transported due to a disequilibria in physical forces.

environmental system determined by a quality
type: Class
subclass of: environmental system
comment: Organisational class. Not intended for annotation.
deprecated: true
definition: An environmental system which is determined by materials bearing roughly homogeneous qualities.

environmental system determined by a material
type: Class
subclass of: environmental system
comment: Organisational class. Not intended for annotation. Subclasses describe environments which are usually permeated by an environmental material. They may also describe environments which are sufficiently close to a material, that their dynamics are strongly influenced by it (e.g. a patch of forest ecosystem neighbouring a uranium dump).
deprecated: true
definition: An environmental system within which an environmental material strongly influences the system's composition and properties.

environmental system determined by an organism
type: Class
subclass of: ecosystem
disjoint with: wetland ecosystem
has related synonym: host-associated environment
in subset: envoEmpo
in subset: envoOmics
definition: An environmental system which is determined by a living organism.

animal-associated environment
type: Class
subclass of: environmental system determined by an organism
has broad synonym: animal environment
has exact synonym: Metazoan-associated environment
in subset: envoEmpo
in subset: envoMeo
in subset: envoOmics
definition: An environmental system determined by an animal.

natural lake
type: Class
subclass of: lake
editor note: This class is to be filled by inference.
definition: A lake which has formed as the result of processes that are not or are only minimally driven by human activity.

radiation
type: Class
subclass of: environmental system process
editor note: Requires addition of waves for full axiomatisation. This should be linked to "subatomic particle" with an "or". Note that ENVO represents space as an environmental material (a hard vacuum with sparse material inclusions).
in subset: environmental_hazards
in subset: envoAstro
definition: A process during which energy is emitted or transmitted in the form of waves or particles through space or a material medium.

saline environment
type: Class
subclass of: environmental system
subclass of: high osmolarity environment
subclass of: environmental system determined by a material
in subset: envoEmpo
comment: The thresholds for "significant" concentrations of salts vary widely and thus no committment is made in this class. Subclasses with more explicit thresholds can be made upon request.
definition: An environment which is determined by materials which bear significant concentrations of salts.

soil environment
type: Class
subclass of: environmental system
subclass of: environmental system determined by a quality
subclass of: environmental system determined by a material
in subset: envoEmpo
in subset: envoOmics
definition: An environmental system which has its properties and dynamics determined by soil.

sediment environment
type: Class
subclass of: environmental system
subclass of: environmental system determined by a material
in subset: envoEmpo
in subset: envoOmics
definition: An environmental system which has its properties and dynamics determined by sediment.

environment associated with an animal part or small animal
type: Class
subclass of: ecosystem
disjoint with: wetland ecosystem
in subset: envoEmpo
in subset: envoMeo
in subset: envoOmics
definition: An environmental system determined by part of a living or dead animal, or a whole small animal.

environment associated with a plant part or small plant
type: Class
subclass of: ecosystem
disjoint with: wetland ecosystem
in subset: envoEmpo
in subset: envoMeo
in subset: envoOmics
definition: An environmental system determined by part of a living or dead plant, or a whole small plant.

metallic material
type: Class
equivalent class: Class
  intersection of: environmental material
  intersection of: Restriction
    on property: has quality
    some values from: opaque
subclass of: environmental material
subclass of: Restriction
  on property: has quality
  some values from: opaque
disjoint with: ice
editor note: Far more axiomatisation can be done should the qualities of metals be added to PATO or a similar quality ontology. However, note that there are many exceptions to the typical qualities of the majority of metals.
has related synonym: metal
comment: While this class allows for some degree of contamination by non-metal substances, the material represented should show at least some of the typical features of a pure metal: hardness (except for liquid metals), opacity, lustre, malleability, fusibility, ductile and good electrical and thermal conductivity.
definition: A material which is composed primarily of one or more pure metals and which shows their properties.

ecosystem
type: Class
subclass of: environmental system
has alternative id: LTER:173
comment: This class will be primarily filled by inference, any environmental system which necessarily includes living parts should be autoclassified here.
definition: An environmental system which includes both living and non-living components.

Axiom
annotated source: ecosystem
annotated property: hasAlternativeId
annotated target: LTER:173
has db xref: http://129.24.124.196/vocab/vocab/index.php

ice
type: Class
subclass of: environmental material
comment: This class is defined logically - any material that is frozen is considered a subclass. Note that ice may be formed at very high temperatures, due to gravitational effects and/or pressure.
definition: An ice is an environmental material which is either frozen or which is maintained in a solid state by gravitational forces or pressure.

environment associated with an aquatic invertebrate
type: Class
subclass of: animal-associated environment
has db xref: http://purl.jp/bio/11/meo/MEO_0000871
in subset: envoMeo
in subset: envoOmics
definition: An environment which has its properties and composition largely determined by the presence of a metazoan which lacks a vetebral column and which has a habitat that is found in an aquatic environmental system.

Axiom
annotated source: environment associated with an aquatic invertebrate
annotated property: hasDbXref
annotated target: http://purl.jp/bio/11/meo/MEO_0000871
comment: Not currently live, may need to be switched to alternative PURLs.

water surface
type: Class
subclass of: aquatic layer
subclass of: Restriction
  on property: part of
  some values from: liquid water
has db xref: EcoLexicon:surface_water
has db xref: SWEETRealm:SurfaceWater
has db xref: https://en.wikipedia.org/wiki/Surface_water
has exact synonym: surface of a body of water
has exact synonym: water body surface
definition: The surface layer of a volume of water.

sediment surface
type: Class
equivalent class: Class
  intersection of: surface layer
  intersection of: Restriction
    on property: part of
    some values from: sediment
subclass of: Restriction
  on property: part of
  some values from: sediment
has exact synonym: surface of a sedimentary mass
has exact synonym: surface sediment
definition: The surface layer of a mass of sediment.

terrestrial environmental zone
type: Class
subclass of: environmental zone
disjoint with: marine environmental zone
disjoint with: atmospheric zone
definition: An environmental zone which is bounded by material parts of a land mass or the atmosphere or space adjacent to it.

marine environmental zone
type: Class
equivalent class: Class
  intersection of: environmental zone
  intersection of: Restriction
    on property: part of
    some values from: marine environment
subclass of: environmental zone
subclass of: Restriction
  on property: part of
  some values from: marine environment
disjoint with: atmospheric zone
comment: This class will eventually be populated by inference alone, with its subclasses distributed in more process-linked hierarchies to improve semantic density.
definition: An environmental zone which is bounded by material parts of a marine environment.

wetland ecosystem
type: Class
subclass of: ecosystem
has db xref: EcoLexicon:wetland
has db xref: FTT:1001
has db xref: FTT:1060
has db xref: FTT:1061
has db xref: FTT:1118
has db xref: FTT:1180
has db xref: FTT:1190
has db xref: FTT:1206
has db xref: FTT:1207
has db xref: FTT:1226
has db xref: FTT:184
has db xref: FTT:185
has db xref: FTT:228
has db xref: FTT:281
has db xref: FTT:480
has db xref: FTT:716
has db xref: FTT:883
has db xref: FTT:934
has db xref: FTT:945
has db xref: FTT:983
has db xref: Geonames:H.WTLD
has db xref: LTER:630
has db xref: SPIRE:Bog
has db xref: SWEETRealm:Wetland
has db xref: TGN:21301
has db xref: TGN:21304
has db xref: TGN:21305
has db xref: https://en.wikipedia.org/wiki/Wetland
has exact synonym: Wetland
has narrow synonym: Estuarine Wetland
has narrow synonym: Lacustrine Wetland
has narrow synonym: Marine Wetland
has narrow synonym: Palustrine Wetland
has narrow synonym: Riparian Wetland
has narrow synonym: Terrestial Wetland
has narrow synonym: back marsh
has narrow synonym: backswamp
has narrow synonym: backwater
has narrow synonym: barrier flat
has narrow synonym: blanket bog
has narrow synonym: bog
has narrow synonym: cienaga
has narrow synonym: dismal
has narrow synonym: everglade
has narrow synonym: floating marsh
has narrow synonym: forested wetland
has narrow synonym: marsh
has narrow synonym: mire
has narrow synonym: mud flat
has narrow synonym: peat cutting area
has narrow synonym: peatland
has narrow synonym: quagmire
has narrow synonym: quaking bog
has narrow synonym: riparian area
has narrow synonym: slash
has narrow synonym: slough
has narrow synonym: slue
has narrow synonym: swamp forest
has narrow synonym: tulelands
has related synonym: moor
has related synonym: morass
has related synonym: muskeg
definition: A terrestrial ecosystem which is inundated or saturated by surface or ground water at a frequency and duration sufficient to support, and that under normal circumstances does support, a prevalence of vegetation typically adapted for life in saturated soil conditions.

Axiom
annotated source: wetland ecosystem
annotated property: hasExactSynonym
annotated target: Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasExactSynonym
annotated target: Wetland
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: Estuarine Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: Lacustrine Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: Marine Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: Palustrine Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: Riparian Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: Terrestial Wetland
has db xref: NASA:earthrealm

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: back marsh
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: backswamp
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: backwater
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: barrier flat
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: blanket bog
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: bog
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: bog
has db xref: Getty:TGN

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: cienaga
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: dismal
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: everglade
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: floating marsh
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: forested wetland
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: marsh
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: mire
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: mire
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: mud flat
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: peat cutting area
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: peatland
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: quagmire
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: quagmire
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: quaking bog
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: riparian area
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: slash
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: slough
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: slough
has db xref: Getty:TGN

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: slough
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: slue
has db xref: ADL:FTT

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: swamp forest
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasNarrowSynonym
annotated target: tulelands
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasRelatedSynonym
annotated target: moor
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasRelatedSynonym
annotated target: morass
has db xref: USGS:SDTS

Axiom
annotated source: wetland ecosystem
annotated property: hasRelatedSynonym
annotated target: muskeg
has db xref: USGS:SDTS

terrestrial natural environment
type: Class
equivalent class: Class
  intersection of: natural environment
  intersection of: Restriction
    on property: part of
    some values from: land mass
subclass of: natural environment
subclass of: Restriction
  on property: part of
  some values from: land mass
disjoint with: aquatic natural environment
definition: A natural environment which is located on a land mass.

aquatic natural environment
type: Class
equivalent class: Class
  intersection of: natural environment
  intersection of: Restriction
    on property: part of
    some values from: body of water
subclass of: natural environment
subclass of: Restriction
  on property: part of
  some values from: body of water
definition: A natural environment which is within a water body.

liquid layer
type: Class
subclass of: surface layer
disjoint with: solid surface layer
definition: A layer which is primarily composed of some liquid material.

solid layer
type: Class
subclass of: layer
definition: A layer which is primarily composed of some solid material, allowing for non-solid parts such as interstitial pockets of gas or liquid.

water ice layer
type: Class
equivalent class: Class
  intersection of: glacial feature
  intersection of: solid layer
definition: A layer which is primarily composed of some solid material, allowing for non-solid parts such as interstitial pockets of gas or liquid.

atmospheric zone
type: Class
equivalent class: Class
  intersection of: environmental zone
  intersection of: Restriction
    on property: part of
    some values from: atmosphere
subclass of: environmental zone
subclass of: Restriction
  on property: part of
  some values from: atmosphere
has exact synonym: atmospheric area
definition: An environmental zone which is part of an atmosphere.

aquatic estuarine layer
type: Class
equivalent class: Class
  intersection of: aquatic layer
  intersection of: Restriction
    on property: part of
    some values from: estuary
subclass of: aquatic layer
subclass of: Restriction
  on property: part of
  some values from: estuary
in subset: envoMarine
in subset: envoPolar
definition: A layer of liquid that is part of an estuary.

vegetated area
type: Class
subclass of: terrestrial environmental zone
created by: ORCID:0000-0002-4366-3088
in subset: envoPolar
definition: A vegetated area is a geographic feature which has ground cover dominated by plant communities.

liquid air-water interface layer
type: Class
equivalent class: Class
  intersection of: liquid layer
  intersection of: Restriction
    on property: adjacent to
    some values from: air
subclass of: liquid layer
subclass of: Restriction
  on property: adjacent to
  some values from: air
definition: A liquid surface layer which is in contact with air.

solid surface layer
type: Class
subclass of: surface layer
definition: A surface layer which is composed primarily of solid environmental material.

advective transport process
type: Class
subclass of: material transport process
has exact synonym: advective transport
comment: Advective processes are disjoint from diffusive processes. Typically, fluids are advected.
definition: A material transport process during which a volume of material is displaced due to a disequilibrium in physical forces and during which 1) the qualities that inhere in that volume and 2) the processes that are unfolding within it are largely unchanged.

erosion
type: Class
equivalent class: Class
  intersection of: material transport process
  intersection of: Restriction
    on property: has participant
    some values from: environmental material
definition: An action of exogenic processes (such as water flow or wind) which remove environmental material from one location on the surface of an astronomical body, transporting it to another location where it is deposited.

anthropogenic ecosystem conversion process
type: Class
subclass of: anthropogenic environmental process
created by: http://orcid.org/0000-0002-4366-3088
definition: A process during which an ecosystem - natural or anthropised - is changed by the actions of humans.

material congelation process
type: Class
subclass of: material transformation process
created by: http://orcid.org/0000-0002-4366-3088
has exact synonym: congelation
has exact synonym: congelation process
comment: Sometimes the increase in viscosity is great enough to crystallize or solidify the substance in question.
definition: A material transformation process during which a material's viscosity increase either through a reduction in temperature or through chemical reactions.

Axiom
annotated source: material congelation process
annotated property: comment
annotated target: Sometimes the increase in viscosity is great enough to crystallize or solidify the substance in question.
has db xref: https://en.wikipedia.org/wiki/Congelation

frozen soil
type: Class
equivalent class: Class
  intersection of: soil
  intersection of: ice
subclass of: soil
subclass of: ice
created by: http://orcid.org/0000-0002-4366-3088
definition: Soil which is below the freezing point of water.

surface layer of a water body
type: Class
equivalent class: Class
  intersection of: water surface
  intersection of: Restriction
    on property: part of
    some values from: body of water
subclass of: water surface
subclass of: Restriction
  on property: part of
  some values from: body of water
created by: http://orcid.org/0000-0002-4366-3088
definition: A water surface that is part of a water body.

terrestrial ecoregion
type: Class
equivalent class: Class
  intersection of: ecoregion
  intersection of: Restriction
    on property: located in
    some values from: land mass
subclass of: ecoregion
subclass of: Restriction
  on property: located in
  some values from: land mass
created by: http://orcid.org/0000-0002-4366-3088
has db xref: https://www.worldwildlife.org/biome-categories/terrestrial-ecoregions
definition: An ecoregion which is located on a landmass.

sea surface layer
type: Class
equivalent class: Class
  intersection of: surface layer of a water body
  intersection of: Restriction
    on property: part of
    some values from: Class
      union of: ocean
      union of: sea
subclass of: marine layer
subclass of: surface layer of a water body
created by: http://orcid.org/0000-0002-4366-3088
in subset: envoMarine
comment: At this level, the depth of this layer is ambiguous. Some methods (telemetry) measure only the first few centimeters of the sea or ocean surface. In situ methods often sample the first few meters. Subclasses can be created for such cases.
definition: A surface layer of a water body which is part of an ocean or sea.

land
type: Class
equivalent class: Class
  intersection of: solid surface layer
  intersection of: geographical region
created by: http://orcid.org/0000-0002-4366-3088
definition: A surface layer of an astronomical body which is primarily composed of solid material and is not covered by oceans or other bodies of water.

ecosystem process
type: Class
equivalent class: Class
  intersection of: environmental system process
  intersection of: biological process
  intersection of: Restriction
    on property: affects
    some values from: ecosystem property
subclass of: environmental system process
subclass of: biological process
disjoint with: reproduction
disjoint with: growth
disjoint with: host organism interaction
created by: http://orcid.org/0000-0002-4366-3088
definition: An environmental process either driven by or primarily impacting the parts or emergent properties of an ecosystem.

environmental system process
type: Class
equivalent class: Class
  intersection of: process
  intersection of: Restriction
    on property: has participant
    some values from: Class
      union of: environmental feature
      union of: environmental material
      union of: environmental system
disjoint with: human activity
disjoint with: invasion
disjoint with: allocation
comment: This is a convenience class for organisation and should not be used for annotation.
definition: A process in which includes the components of an environmental system as participants.

atmospheric process
type: Class
equivalent class: Class
  intersection of: environmental system process
  intersection of: Restriction
    on property: occurs in
    some values from: atmosphere
subclass of: environmental system process
subclass of: Restriction
  on property: occurs in
  some values from: atmosphere
comment: This class will be populated by inference and is primarily organisational.
definition: A process which occurs within an atmosphere.

anthropogenic environmental process
type: Class
equivalent class: Class
  intersection of: environmental system process
  intersection of: Restriction
    on property: output of
    some values from: human activity
subclass of: environmental system process
definition: An environmental process which is driven by the action of humans.

hydrological process
type: Class
equivalent class: Class
  intersection of: environmental system process
  intersection of: Restriction
    on property: has participant
    some values from: Class
      union of: water
      union of: liquid water
      union of: water vapour
      union of: water ice
subclass of: environmental system process
subclass of: Restriction
  on property: has participant
  some values from: Class
    union of: water
    union of: water vapour
    union of: water ice
subclass of: Restriction
  on property: has participant
  some values from: Class
    union of: liquid water
    union of: water vapour
    union of: water ice
comment: This classes asserted subclasses will be moved away as it should be an inferred class.
definition: An environmental process which has water - in any of its states - as a participant.

material accumulation process
type: Class
subclass of: environmental system process
created by: http://orcid.org/0000-0002-3410-4655
created by: http://orcid.org/0000-0002-4366-3088
in subset: envoPolar
comment: Experimental class for structural purposes not recommended for annotation. A material accumulation process ends a material transport process.
definition: A process during which the mass of one or more materials, present within a given site, increases.

material transport process
type: Class
equivalent class: Class
  intersection of: environmental system process
  intersection of: Restriction
    on property: has output
    some values from: Class
      intersection of: material entity
      intersection of: Restriction
        on property: has quality
        some values from: displaced
subclass of: environmental system process
subclass of: Restriction
  on property: has output
  some values from: Class
    intersection of: material entity
    intersection of: Restriction
      on property: has quality
      some values from: displaced
created by: http://orcid.org/0000-0002-3410-4655
created by: http://orcid.org/0000-0002-4366-3088
in subset: envoPolar
comment: Experimental class for structural purposes not recommended for annotation.
definition: A process during which material is displaced from its original location and transported either to a new location or back to the original location.

marine sediment
type: Class
equivalent class: Class
  intersection of: sediment
  intersection of: Restriction
    on property: output of
    some values from: sedimentation in a water body
subclass of: sediment
subclass of: Restriction
  on property: output of
  some values from: sedimentation in a water body
created by: http://orcid.org/0000-0002-3410-4655
created by: http://orcid.org/0000-0002-4366-3088
has exact synonym: marine sediments
in subset: envoPolar
comment: Particles of marine sediment are primarily generated by 1) processes in terrestrial systems and transported to the marine realm by the action of rivers or aeolian processes (amongst other routes) , 2) marine organisms, 3) chemical processes in seawater, or 4) cosmogeneous input.
definition: Sediment which has been transported through the marine water column, settling on the seafloor.

sedimentation in a water body
type: Class
equivalent class: Class
  intersection of: material accumulation process
  intersection of: Restriction
    on property: has part
    some values from: precipitation process
  intersection of: Restriction
    on property: occurs in
    some values from: body of water
  intersection of: Restriction
    on property: has participant
    some values from: particulate matter
  intersection of: Restriction
    on property: ends
    some values from: material transport process
subclass of: material accumulation process
subclass of: Restriction
  on property: has part
  some values from: precipitation process
subclass of: Restriction
  on property: occurs in
  some values from: body of water
subclass of: Restriction
  on property: has participant
  some values from: particulate matter
subclass of: Restriction
  on property: ends
  some values from: material transport process
created by: http://orcid.org/0000-0002-3410-4655
created by: http://orcid.org/0000-0002-4366-3088
in subset: envoPolar
definition: A material accumulation process during which solid particles are pulled through a water body by gravitation or centrifugal force and which ends when they settle on a solid surface.

material transformation process
type: Class
equivalent class: Class
  intersection of: environmental system process
  intersection of: Restriction
    on property: has input
    some values from: environmental material
  intersection of: Restriction
    on property: has output
    some values from: environmental material
subclass of: environmental system process
subclass of: Restriction
  on property: has input
  some values from: environmental material
subclass of: Restriction
  on property: has output
  some values from: environmental material
editor note: A different material transformation process class (or similarly named class) pertaining to the conversion of a specific chemical into another belongs in CHEBI and or REX ontologies.
created by: http://orcid.org/0000-0002-3410-4655
created by: http://orcid.org/0000-0002-4366-3088
in subset: envoPolar
comment: Experimental class for structural purposes not recommended for annotation. A material transformation process only refers to ENVO:environmental material classes (e.g. bulk and typically impure substances), rather than transformations converting a specific chemical into another.
definition: A process during which a portion of some environmental material is converted into a different material or a collection of materials.

porosity of soil
type: Class
equivalent class: Class
  intersection of: structure of soil
  intersection of: porosity
subclass of: structure of soil
subclass of: porosity
disjoint with: composition of soil
has exact synonym: soil porosity
definition: The porosity of some soil.

composition of soil
type: Class
equivalent class: Class
  intersection of: structure of soil
  intersection of: composition
subclass of: structure of soil
subclass of: composition
has exact synonym: soil composition
definition: The composition of some soil.

structure of soil
type: Class
subclass of: structure
has exact synonym: soil structure
definition: The structure of some soil.

wetness of soil
type: Class
subclass of: wetness
has exact synonym: soil wetness
definition: The wetness of some soil.

composition of water
type: Class
subclass of: composition
has exact synonym: water composition
definition: The composition of some water.

anatomical entity environment
type: Class
subclass of: environmental system
deprecated: true
definition: An environment which is determined by an anatomical entity.

subcontinental land mass
type: Class
subclass of: land mass

contiguous land mass
type: Class
subclass of: subcontinental land mass
has exact synonym: contiguous continental land mass
comment: per the definition of 'contiguous' of "being in actual contact : touching along a boundary or at a point", these land masses share boundaries with other land masses that are part of the same continent, and thus are not surrounded by water like an island. At some point, we need an 'adjacent to' relation if BFO doesn't provide it. One question is whether this class encompasses fiat parts of islands.

contiguous island land mass
type: Class
subclass of: subcontinental land mass
created by: William R. Hogan
comment: It cannot be a part of the island, for example, that is below water.
definition: A subcontinental land mass that is part of an island and includes part of the land surface of the island.

aggregate of contiguous land masses
type: Class
equivalent class: Restriction
  on property: is aggregate of
  some values from: land mass
subclass of: land mass

geographical region
type: Class
subclass of: region
created by: François Modave
created by: Mathias Brochhausen
created by: Matt Diller
created by: William R. Hogan
has exact synonym: geographical location
definition: A geographical entity that is demarcated at least in part by one or more closed fiat boundaries all of whose lines are part of the planetary surface.

land mass
type: Class
subclass of: geographical region

aggregate of islands
type: Class
equivalent class: Class
  intersection of: aggregate of contiguous land masses
  intersection of: Restriction
    on property: has part
    some values from: island
subclass of: aggregate of contiguous land masses

geodetic coordinate measurement datum
type: Class
subclass of: measurement datum
IAO_0000111: geodetic coordinate measurement datum
IAO_0000115: A measurement of location on the Earth that uses a single number to specify a coordinate in a coordinate system known as a geodetic datum.
created by: Josh Hanna
created by: William R. Hogan
comment: latitude and longitude are key subtypes

geodetic datum
type: Class
subclass of: information content entity
IAO_0000111: geodetic datum
IAO_0000115: A coordinate system, and a set of reference points, used to locate places on the Earth (or similar objects).
IAO_0000119: Wikipedia: https://en.wikipedia.org/wiki/Geodetic_datum Date accessed: 2015-04-13
created by: Josh Hanna
created by: William R. Hogan
comment: Every latitude and longitude measurement is with respect to a geodetic datum. Most common ones in use are NAD83 and WGS84.

plane angle measurement unit label
type: Class
subclass of: measurement unit label
IAO_0000111: planar angular measurement unit label

reproduction
type: Class
equivalent class: Class
  intersection of: biological process
  intersection of: Restriction
    on property: affects
    some values from: population size
  intersection of: Restriction
    on property: has output
    some values from: organism
subclass of: biological process
disjoint with: growth
disjoint with: host organism interaction
has alternative id: GO:0019952
has alternative id: GO:0050876
has db xref: Wikipedia:Reproduction
has exact synonym: reproductive physiological process
has OBO namespace: biological_process
id: GO:0000003
in subset: goslim agr
in subset: goslim chembl
in subset: goslim flybase ribbon
in subset: goslim generic
in subset: goslim pir
in subset: goslim plant
definition: The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms.

biological process
type: Class
equivalent class: Class
  intersection of: process
  intersection of: Restriction
    on property: has participant
    some values from: organism
has exact synonym: biological process
has exact synonym: physiological process
has related synonym: single organism process
has related synonym: single-organism process
definition: Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.

growth
type: Class
equivalent class: Class
  intersection of: biological process
  intersection of: Restriction
    on property: increases
    some values from: Class
      union of: size
      union of: mass
subclass of: biological process
disjoint with: host organism interaction
has alternative id: GO:0048590
has OBO namespace: biological_process
has related synonym: growth pattern
has related synonym: non-developmental growth
id: GO:0040007
in subset: gocheck do not annotate
in subset: goslim chembl
in subset: goslim generic
in subset: goslim pir
in subset: goslim plant
comment: See also the biological process term 'cell growth ; GO:0016049'.
definition: The increase in size or mass of an entire organism, a part of an organism or a cell.

Axiom
annotated source: growth
annotated property: hasRelatedSynonym
annotated target: non-developmental growth
has db xref: GOC:mah

measurement unit label
type: Class
subclass of: data item label
IAO_0000111: measurement unit label
IAO_0000112: Examples of measurement unit labels are liters, inches, weight per volume.
IAO_0000114: IAO_0000122
IAO_0000115: A data item label that denotes a unit of measure.
editor note: 2009-03-16: provenance: a term measurement unit was proposed for OBI (OBI_0000176) , edited by Chris Stoeckert and Cristian Cocos, and subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definition of this, different, term.
editor note: 2009-03-16: review of this term done during during the OBI workshop winter 2009 and the current definition was considered acceptable for use in OBI. If there is a need to modify this definition please notify OBI.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
created by: PERSON: Alan Ruttenberg
created by: PERSON: Melanie Courtot

data item label
type: Class
subclass of: information content entity
IAO_0000111: data item label
IAO_0000114: IAO_0000122
IAO_0000115: An information content entity that is part of some data item and is used to partially define the denotation of that data item.
editor note: http://www.golovchenko.org/cgi-bin/wnsearch#4n
IAO_0000118: datum label
IAO_0000232: 9/22/11 BP: changed the rdfs:label for this class from 'label' to 'datum label' to convey that this class is not intended to cover all kinds of labels (stickers, radiolabels, etc.), and not even all kind of textual labels, but rather the kind of labels occuring in a datum.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
created by: GROUP: IAO

data item
type: Class
subclass of: information content entity
IAO_0000115: a data item is an information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements.

information content entity
type: Class
subclass of: generically dependent continuant
IAO_0000115: A generically dependent continuant that is about some thing.

scalar measurement datum
type: Class
subclass of: measurement datum
IAO_0000111: scalar measurement datum
IAO_0000112: 10 feet. 3 ml.
IAO_0000114: IAO_0000120
IAO_0000115: a scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label.
editor note: 2009-03-16: we decided to keep datum singular in scalar measurement datum, as in this case we explicitly refer to the singular form
editor note: Would write this as: has_part some 'measurement unit label' and has_part some numeral and has_part exactly 2, except for the fact that this won't let us take advantage of OWL reasoning over the numbers. Instead use has measurment value property to represent the same. Use has measurement unit label (subproperty of has_part) so we can easily say that there is only one of them.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
created by: PERSON: Alan Ruttenberg
created by: PERSON: Melanie Courtot

curation status specification
type: Class
subclass of: data about an ontology part
IAO_0000111: curation status specification
IAO_0000114: IAO_0000125
IAO_0000115: The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value.
editor note: Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)
IAO_0000119: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
IAO_0000119: OBI_0000266
IAO_0000412: envo.owl
created by: PERSON:Bill Bug

data about an ontology part
type: Class
subclass of: data item
IAO_0000115: data about an ontology part is a data item about a part of an ontology, for example a term
created by: Person:Alan Ruttenberg

measurement datum
type: Class
subclass of: data item
IAO_0000111: measurement datum
IAO_0000112: Examples of measurement data are the recoding of the weight of a mouse as {40,mass,"grams"}, the recording of an observation of the behavior of the mouse {,process,"agitated"}, the recording of the expression level of a gene as measured through the process of microarray experiment {3.4,luminosity,}.
IAO_0000114: IAO_0000125
IAO_0000115: A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device.
editor note: 2/2/2009 is_specified_output of some assay?
IAO_0000119: OBI_0000305
IAO_0000119: group:OBI
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
created by: person:Chris Stoeckert

obsolescence reason specification
type: Class
equivalent class: Class
  one of: IAO_0000103
  one of: IAO_0000226
  one of: IAO_0000227
  one of: IAO_0000228
  one of: IAO_0000229
subclass of: data about an ontology part
IAO_0000111: obsolescence reason specification
IAO_0000114: IAO_0000125
IAO_0000115: The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value.
editor note: The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology.
IAO_0000412: envo.owl
created by: PERSON: Alan Ruttenberg
created by: PERSON: Melanie Courtot

denotator type
type: Class
equivalent class: Class
  one of: IAO_0000410
  one of: IAO_0000420
  one of: IAO_0000421
subclass of: data about an ontology part
IAO_0000112: The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are "natural kinds" and the latter arbitrary collections of entities.
IAO_0000115: A denotator type indicates how a term should be interpreted from an ontological perspective.
IAO_0000119: Barry Smith, Werner Ceusters
IAO_0000412: envo.owl
created by: Alan Ruttenberg

ontology module
type: Class
subclass of: data about an ontology part
editor note: I have placed this under 'data about an ontology part', but this can be discussed. I think this is OK if 'part' is interpreted reflexively, as an ontology module is the whole ontology rather than part of it.
IAO_0000118: ontology file
IAO_0000232: This class and it's subclasses are applied to OWL ontologies. Using an rdf:type triple will result in problems with OWL-DL. I propose that dcterms:type is instead used to connect an ontology URI with a class from this hierarchy. The class hierarchy is not disjoint, so multiple assertions can be made about a single ontology.
created by: cjm
creation date: 2018-05-20T20:55:03Z

base ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies.
created by: cjm
creation date: 2018-05-20T20:55:30Z
000131: true

editors ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users.
IAO_0000118: source ontology module
created by: cjm
creation date: 2018-05-20T20:55:47Z
000131: true

main release ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that is intended to be the primary release product and the one consumed by the majority of tools.
editor note: TODO: Add logical axioms that state that a main release ontology module is derived from (directly or indirectly) an editors module
created by: cjm
creation date: 2018-05-20T20:56:13Z
000131: true

bridge ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module.
created by: cjm
creation date: 2018-05-20T20:56:23Z
000131: true

import ontology module
type: Class
subclass of: subset ontology module
IAO_0000115: A subset ontology module that is intended to be imported from another ontology.
editor note: TODO: add axioms that indicate this is the output of a module extraction process.
IAO_0000118: import file
created by: cjm
creation date: 2018-05-20T20:56:47Z
000131: true

subset ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms.
IAO_0000118: ontology slim
IAO_0000118: subset ontology
created by: cjm
creation date: 2018-05-20T20:58:11Z
000131: true

curation subset ontology module
type: Class
subclass of: subset ontology module
IAO_0000115: A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation.
created by: cjm
creation date: 2018-05-20T20:58:38Z
000131: true

analysis subset ontology module
type: Class
subclass of: subset ontology module
IAO_0000115: An ontology module that is intended for usage in analysis or discovery applications.
created by: cjm
creation date: 2018-05-20T20:58:49Z
000131: true

single layer subset ontology module
type: Class
subclass of: subset ontology module
IAO_0000115: A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint.
IAO_0000118: ribbon subset
created by: cjm
creation date: 2018-05-20T20:59:19Z
000131: true

exclusion subset ontology module
type: Class
subclass of: subset ontology module
IAO_0000115: A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes.
IAO_0000118: antislim
created by: cjm
creation date: 2018-05-20T20:59:57Z
000131: true

external import ontology module
type: Class
subclass of: import ontology module
IAO_0000115: An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach.
IAO_0000118: external import
created by: cjm
creation date: 2018-05-20T21:00:14Z
000131: true

species subset ontology module
type: Class
subclass of: subset ontology module
IAO_0000115: A subset ontology that is crafted to either include or exclude a taxonomic grouping of species.
IAO_0000118: taxon subset
created by: cjm
creation date: 2018-05-20T21:14:16Z
000131: true

reasoned ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available.
created by: cjm
creation date: 2018-05-20T21:20:33Z
000131: true

generated ontology module
type: Class
subclass of: ontology module
IAO_0000115: An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV.
editor note: TODO: Add axioms (using PROV-O?) that indicate this is the output-of some reasoning process
created by: cjm
creation date: 2018-05-20T21:21:12Z
000131: true

template generated ontology module
type: Class
subclass of: generated ontology module
IAO_0000115: An ontology module that is automatically generated from a template specification and fillers for slots in that template.
created by: cjm
creation date: 2018-05-20T21:21:21Z
000131: true

taxonomic bridge ontology module
type: Class
subclass of: bridge ontology module
created by: cjm
creation date: 2018-05-20T21:28:15Z
000131: true

ontology module subsetted by expressivity
type: Class
subclass of: subset ontology module
created by: cjm
creation date: 2018-05-22T04:15:54Z
000131: true

obo basic subset ontology module
type: Class
subclass of: ontology module subsetted by expressivity
IAO_0000115: A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools. Examples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses). An ontology is OBO Basic if and only if it has the following characteristics: DAG Unidirectional No Dangling Clauses Fully Asserted Fully Labeled No equivalence axioms Singly labeled edges No qualifier lists No disjointness axioms No owl-axioms header No imports
created by: cjm
creation date: 2018-05-22T04:16:10Z
000131: true

ontology module subsetted by owl profile
type: Class
subclass of: ontology module subsetted by expressivity
created by: cjm
creation date: 2018-05-22T04:16:28Z
000131: true

el++ ontology module
type: Class
subclass of: ontology module subsetted by owl profile
created by: cjm
creation date: 2018-05-22T04:16:48Z
000131: true

viruses
type: Class
subclass of: taxon
disjoint with: bacteria
disjoint with: archaea
disjoint with: eukaryota
disjoint with: protozoa
disjoint with: algae
has related synonym: Vira
has related synonym: Viridae

Axiom
annotated source: viruses
annotated property: hasRelatedSynonym
annotated target: Vira
has synonym type: synonym

Axiom
annotated source: viruses
annotated property: hasRelatedSynonym
annotated target: Viridae
has synonym type: synonym

myxini
type: Class
subclass of: cyclostomata
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: fish
has exact synonym: fishes
has OBO namespace: ncbi_taxonomy
has related synonym: Agnatha
has related synonym: Hyperotreti

Axiom
annotated source: myxini
annotated property: hasExactSynonym
annotated target: fish
has synonym type: common name

Axiom
annotated source: myxini
annotated property: hasExactSynonym
annotated target: fishes
has synonym type: common name

Axiom
annotated source: myxini
annotated property: hasRelatedSynonym
annotated target: Agnatha
has synonym type: in part

Axiom
annotated source: myxini
annotated property: hasRelatedSynonym
annotated target: Hyperotreti
has synonym type: synonym

hyperoartia
type: Class
subclass of: cyclostomata
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: Petromyzontida
has exact synonym: fish
has exact synonym: fishes
has OBO namespace: ncbi_taxonomy
has related synonym: Agnatha
has related synonym: Cephalaspidomorphi
has related synonym: Monorhina

Axiom
annotated source: hyperoartia
annotated property: hasExactSynonym
annotated target: fish
has synonym type: common name

Axiom
annotated source: hyperoartia
annotated property: hasExactSynonym
annotated target: fishes
has synonym type: common name

Axiom
annotated source: hyperoartia
annotated property: hasRelatedSynonym
annotated target: Agnatha
has synonym type: in part

Axiom
annotated source: hyperoartia
annotated property: hasRelatedSynonym
annotated target: Cephalaspidomorphi
has synonym type: in part

Axiom
annotated source: hyperoartia
annotated property: hasRelatedSynonym
annotated target: Monorhina
has synonym type: in part

teleostomi
type: Class
subclass of: gnathostomata <vertebrate>

euteleostomi
type: Class
subclass of: teleostomi
has exact synonym: bony vertebrates

Axiom
annotated source: euteleostomi
annotated property: hasExactSynonym
annotated target: bony vertebrates
has synonym type: genbank common name

ecdysozoa
type: Class
subclass of: protostomia
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

lophotrochozoa
type: Class
subclass of: spiralia
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

crocodylia
type: Class
subclass of: archosauria
subclass of: reptilia
has rank: NCBITaxon order
has db xref: GC_ID:1
has exact synonym: alligators and others
has OBO namespace: ncbi_taxonomy
has related synonym: Crocodilia
has related synonym: Reptilia
has related synonym: reptiles

Axiom
annotated source: crocodylia
annotated property: hasExactSynonym
annotated target: alligators and others
has synonym type: genbank common name

Axiom
annotated source: crocodylia
annotated property: hasRelatedSynonym
annotated target: Crocodilia
has synonym type: synonym

Axiom
annotated source: crocodylia
annotated property: hasRelatedSynonym
annotated target: Reptilia
has synonym type: in part

Axiom
annotated source: crocodylia
annotated property: hasRelatedSynonym
annotated target: reptiles
has synonym type: in part

streptophytina
type: Class
subclass of: streptophyta
has rank: NCBITaxon subphylum
has db xref: GC_ID:1
has exact synonym: charophyte/embryophyte group
has OBO namespace: ncbi_taxonomy
has related synonym: Charophyta/Embryophyta group

Axiom
annotated source: streptophytina
annotated property: hasExactSynonym
annotated target: charophyte/embryophyte group
has synonym type: equivalent name

Axiom
annotated source: streptophytina
annotated property: hasRelatedSynonym
annotated target: Charophyta/Embryophyta group
has synonym type: synonym

archelosauria
type: Class
subclass of: sauria
has rank: NCBITaxon clade
has db xref: GC_ID:1
has db xref: PMID:22839753
has db xref: PMID:25450099
has OBO namespace: ncbi_taxonomy
has related synonym: Archosauria-Testudines
has related synonym: Testudines + Archosauria group

Axiom
annotated source: archelosauria
annotated property: hasRelatedSynonym
annotated target: Archosauria-Testudines
has synonym type: synonym

Axiom
annotated source: archelosauria
annotated property: hasRelatedSynonym
annotated target: Testudines + Archosauria group
has synonym type: synonym

dipnotetrapodomorpha
type: Class
subclass of: sarcopterygii

cercozoa
type: Class
subclass of: rhizaria
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy
has related synonym: cercozoans

Axiom
annotated source: cercozoa
annotated property: hasRelatedSynonym
annotated target: cercozoans
has synonym type: blast name

boreoeutheria
type: Class
subclass of: eutheria
has related synonym: Boreotheria

Axiom
annotated source: boreoeutheria
annotated property: hasRelatedSynonym
annotated target: Boreotheria
has synonym type: synonym

cyclostomata
type: Class
subclass of: pisces
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: jawless vertebrates
has OBO namespace: ncbi_taxonomy
has related synonym: Agnatha

Axiom
annotated source: cyclostomata
annotated property: hasExactSynonym
annotated target: jawless vertebrates
has synonym type: genbank common name

Axiom
annotated source: cyclostomata
annotated property: hasRelatedSynonym
annotated target: Agnatha
has synonym type: synonym

pancrustacea
type: Class
subclass of: mandibulata
has rank: NCBITaxon clade
has db xref: GC_ID:1
has db xref: PMID:10874751
has db xref: PMID:11557979
has OBO namespace: ncbi_taxonomy

mandibulata
type: Class
subclass of: arthropoda
has rank: NCBITaxon clade
has db xref: GC_ID:1
has db xref: PMID:11557979
has db xref: PMID:9727836
has exact synonym: mandibulates
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: mandibulata
annotated property: hasExactSynonym
annotated target: mandibulates
has synonym type: common name

bacteria
type: Class
subclass of: taxon
disjoint with: archaea
disjoint with: eukaryota
disjoint with: protozoa
disjoint with: algae
has exact synonym: eubacteria
has related synonym: Monera
has related synonym: Procaryotae
has related synonym: Prokaryota
has related synonym: Prokaryotae
has related synonym: bacteria
has related synonym: not Bacteria Haeckel 1894
has related synonym: prokaryote
has related synonym: prokaryotes

Axiom
annotated source: bacteria
annotated property: hasExactSynonym
annotated target: eubacteria
has synonym type: genbank common name

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: Monera
has synonym type: in part

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: Procaryotae
has synonym type: in part

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: Prokaryota
has synonym type: in part

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: Prokaryotae
has synonym type: in part

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: bacteria
has synonym type: blast name

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: not Bacteria Haeckel 1894
has synonym type: synonym

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: prokaryote
has synonym type: in part

Axiom
annotated source: bacteria
annotated property: hasRelatedSynonym
annotated target: prokaryotes
has synonym type: in part

homininae
type: Class
subclass of: hominidae
has related synonym: Homo/Pan/Gorilla group

Axiom
annotated source: homininae
annotated property: hasRelatedSynonym
annotated target: Homo/Pan/Gorilla group
has synonym type: synonym

archaea
type: Class
subclass of: taxon
disjoint with: eukaryota
disjoint with: protozoa
disjoint with: algae
has related synonym: Archaebacteria
has related synonym: Mendosicutes
has related synonym: Metabacteria
has related synonym: Monera
has related synonym: Procaryotae
has related synonym: Prokaryota
has related synonym: Prokaryotae
has related synonym: archaea
has related synonym: prokaryote
has related synonym: prokaryotes

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Archaebacteria
has synonym type: synonym

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Mendosicutes
has synonym type: synonym

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Metabacteria
has synonym type: synonym

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Monera
has synonym type: in part

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Procaryotae
has synonym type: in part

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Prokaryota
has synonym type: in part

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: Prokaryotae
has synonym type: in part

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: archaea
has synonym type: blast name

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: prokaryote
has synonym type: in part

Axiom
annotated source: archaea
annotated property: hasRelatedSynonym
annotated target: prokaryotes
has synonym type: in part

haptista
type: Class
subclass of: eukaryota
disjoint with: discoba
disjoint with: sar
disjoint with: rhodophyta
disjoint with: cryptophyceae
disjoint with: viridiplantae
disjoint with: opisthokonta
disjoint with: glaucocystophyceae
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has db xref: PMID:30257078
has OBO namespace: ncbi_taxonomy

discoba
type: Class
subclass of: eukaryota
disjoint with: sar
disjoint with: rhodophyta
disjoint with: cryptophyceae
disjoint with: viridiplantae
disjoint with: opisthokonta
disjoint with: glaucocystophyceae
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

spiralia
type: Class
subclass of: protostomia
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

sar
type: Class
subclass of: eukaryota
disjoint with: rhodophyta
disjoint with: cryptophyceae
disjoint with: viridiplantae
disjoint with: opisthokonta
disjoint with: glaucocystophyceae
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy
has related synonym: SAR supergroup

Axiom
annotated source: sar
annotated property: hasRelatedSynonym
annotated target: SAR supergroup
has synonym type: synonym

eukaryota
type: Class
subclass of: taxon
has rank: NCBITaxon superkingdom
has db xref: GC_ID:1
has db xref: PMID:23020233
has exact synonym: eucaryotes
has exact synonym: eukaryotes
has OBO namespace: ncbi_taxonomy
has related synonym: Eucarya
has related synonym: Eucaryotae
has related synonym: Eukarya
has related synonym: Eukaryotae
has related synonym: eukaryotes
id: NCBITaxon:2759

Axiom
annotated source: eukaryota
annotated property: hasExactSynonym
annotated target: eucaryotes
has synonym type: genbank common name

Axiom
annotated source: eukaryota
annotated property: hasExactSynonym
annotated target: eucaryotes
has synonym type: genbank common name

Axiom
annotated source: eukaryota
annotated property: hasExactSynonym
annotated target: eukaryotes
has synonym type: common name

Axiom
annotated source: eukaryota
annotated property: hasExactSynonym
annotated target: eukaryotes
has synonym type: common name

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eucarya
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eucarya
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eucaryotae
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eucaryotae
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eukarya
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eukarya
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eukaryotae
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: Eukaryotae
has synonym type: synonym

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: eukaryotes
has synonym type: blast name

Axiom
annotated source: eukaryota
annotated property: hasRelatedSynonym
annotated target: eukaryotes
has synonym type: blast name

rhodophyta
type: Class
subclass of: eukaryota
subclass of: algae
disjoint with: cryptophyceae
disjoint with: viridiplantae
disjoint with: opisthokonta
disjoint with: glaucocystophyceae
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has exact synonym: red algae
has exact synonym: rhodophytes
has OBO namespace: ncbi_taxonomy
has related synonym: Rhodophyceae
has related synonym: Rhodophycota
has related synonym: algae
has related synonym: red algae

Axiom
annotated source: rhodophyta
annotated property: hasExactSynonym
annotated target: red algae
has synonym type: genbank common name

Axiom
annotated source: rhodophyta
annotated property: hasExactSynonym
annotated target: rhodophytes
has synonym type: common name

Axiom
annotated source: rhodophyta
annotated property: hasRelatedSynonym
annotated target: Rhodophyceae
has synonym type: synonym

Axiom
annotated source: rhodophyta
annotated property: hasRelatedSynonym
annotated target: Rhodophycota
has synonym type: synonym

Axiom
annotated source: rhodophyta
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

Axiom
annotated source: rhodophyta
annotated property: hasRelatedSynonym
annotated target: red algae
has synonym type: blast name

haptophyta
type: Class
subclass of: haptista
subclass of: algae
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: coccolithophorids
has OBO namespace: ncbi_taxonomy
has related synonym: Chromophyta
has related synonym: Haptophyceae
has related synonym: Prymnesiophyta
has related synonym: algae
has related synonym: haptophytes

Axiom
annotated source: haptophyta
annotated property: hasExactSynonym
annotated target: coccolithophorids
has synonym type: common name

Axiom
annotated source: haptophyta
annotated property: hasRelatedSynonym
annotated target: Chromophyta
has synonym type: in part

Axiom
annotated source: haptophyta
annotated property: hasRelatedSynonym
annotated target: Haptophyceae
has synonym type: synonym

Axiom
annotated source: haptophyta
annotated property: hasRelatedSynonym
annotated target: Prymnesiophyta
has synonym type: synonym

Axiom
annotated source: haptophyta
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

Axiom
annotated source: haptophyta
annotated property: hasRelatedSynonym
annotated target: haptophytes
has synonym type: blast name

testudinata
type: Class
subclass of: archelosauria
has rank: NCBITaxon subclass
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

dinophyceae
type: Class
subclass of: alveolata
subclass of: algae
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: Dinoflagellata
has exact synonym: dinoflagellates
has exact synonym: dinophytes
has OBO namespace: ncbi_taxonomy
has related synonym: Chromophyta
has related synonym: Dinoflagellata
has related synonym: Dinophycidae
has related synonym: Dinophyta
has related synonym: Pyrrhophyta
has related synonym: Pyrrophyta
has related synonym: algae
has related synonym: dinoflagellates

Axiom
annotated source: dinophyceae
annotated property: hasExactSynonym
annotated target: dinoflagellates
has synonym type: genbank common name

Axiom
annotated source: dinophyceae
annotated property: hasExactSynonym
annotated target: dinophytes
has synonym type: common name

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: Chromophyta
has synonym type: in part

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: Dinoflagellata
has synonym type: synonym

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: Dinophycidae
has synonym type: synonym

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: Dinophyta
has synonym type: synonym

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: Pyrrhophyta
has synonym type: synonym

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: Pyrrophyta
has synonym type: synonym

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

Axiom
annotated source: dinophyceae
annotated property: hasRelatedSynonym
annotated target: dinoflagellates
has synonym type: blast name

chlorarachniophyceae
type: Class
subclass of: cercozoa
subclass of: algae
has rank: NCBITaxon class
has db xref: GC_ID:1
has db xref: PMID:7874738
has exact synonym: chlorarachniophytes
has OBO namespace: ncbi_taxonomy
has related synonym: Chlorarachnida
has related synonym: Chlorarachniophyta
has related synonym: algae

Axiom
annotated source: chlorarachniophyceae
annotated property: hasExactSynonym
annotated target: chlorarachniophytes
has synonym type: common name

Axiom
annotated source: chlorarachniophyceae
annotated property: hasRelatedSynonym
annotated target: Chlorarachnida
has synonym type: synonym

Axiom
annotated source: chlorarachniophyceae
annotated property: hasRelatedSynonym
annotated target: Chlorarachniophyta
has synonym type: synonym

Axiom
annotated source: chlorarachniophyceae
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

cryptophyceae
type: Class
subclass of: eukaryota
subclass of: algae
disjoint with: viridiplantae
disjoint with: opisthokonta
disjoint with: glaucocystophyceae
has rank: NCBITaxon class
has alternative id: NCBITaxon:2895
has db xref: GC_ID:1
has exact synonym: Cryptophyta
has exact synonym: cryptomonads
has OBO namespace: ncbi_taxonomy
has related synonym: Chromophyta
has related synonym: Cryptomonadida
has related synonym: algae
has related synonym: cryptomonads
has related synonym: cryptophytes

Axiom
annotated source: cryptophyceae
annotated property: hasExactSynonym
annotated target: cryptomonads
has synonym type: genbank common name

Axiom
annotated source: cryptophyceae
annotated property: hasRelatedSynonym
annotated target: Chromophyta
has synonym type: in part

Axiom
annotated source: cryptophyceae
annotated property: hasRelatedSynonym
annotated target: Cryptomonadida
has synonym type: synonym

Axiom
annotated source: cryptophyceae
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

Axiom
annotated source: cryptophyceae
annotated property: hasRelatedSynonym
annotated target: cryptomonads
has synonym type: blast name

Axiom
annotated source: cryptophyceae
annotated property: hasRelatedSynonym
annotated target: cryptophytes
has synonym type: synonym

euglenida
type: Class
subclass of: euglenozoa
subclass of: algae
has rank: NCBITaxon class
has alternative id: NCBITaxon:2570883
has db xref: GC_ID:1
has db xref: PMID:12812373
has exact synonym: euglenids
has exact synonym: euglenophytes
has OBO namespace: ncbi_taxonomy
has related synonym: Euglenoida
has related synonym: Euglenophyta
has related synonym: algae
has related synonym: euglenoids

Axiom
annotated source: euglenida
annotated property: hasExactSynonym
annotated target: euglenids
has synonym type: genbank common name

Axiom
annotated source: euglenida
annotated property: hasExactSynonym
annotated target: euglenophytes
has synonym type: common name

Axiom
annotated source: euglenida
annotated property: hasRelatedSynonym
annotated target: Euglenoida
has synonym type: synonym

Axiom
annotated source: euglenida
annotated property: hasRelatedSynonym
annotated target: Euglenophyta
has synonym type: synonym

Axiom
annotated source: euglenida
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

Axiom
annotated source: euglenida
annotated property: hasRelatedSynonym
annotated target: euglenoids
has synonym type: blast name

chlorophyta
type: Class
subclass of: viridiplantae
subclass of: algae
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has db xref: PMID:23020233
has exact synonym: green algae
has OBO namespace: ncbi_taxonomy
has related synonym: Chlorophycota
has related synonym: Chlorophyta sensu Bremer 1985
has related synonym: algae
has related synonym: green algae

Axiom
annotated source: chlorophyta
annotated property: hasExactSynonym
annotated target: green algae
has synonym type: genbank common name

Axiom
annotated source: chlorophyta
annotated property: hasRelatedSynonym
annotated target: Chlorophycota
has synonym type: synonym

Axiom
annotated source: chlorophyta
annotated property: hasRelatedSynonym
annotated target: Chlorophyta sensu Bremer 1985
has synonym type: synonym

Axiom
annotated source: chlorophyta
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

Axiom
annotated source: chlorophyta
annotated property: hasRelatedSynonym
annotated target: green algae
has synonym type: blast name

euarchontoglires
type: Class
subclass of: boreoeutheria

simiiformes
type: Class
subclass of: haplorrhini
has related synonym: Anthropoidea

Axiom
annotated source: simiiformes
annotated property: hasRelatedSynonym
annotated target: Anthropoidea
has synonym type: synonym

hominoidea
type: Class
subclass of: catarrhini
has exact synonym: ape
has exact synonym: apes

Axiom
annotated source: hominoidea
annotated property: hasExactSynonym
annotated target: ape
has synonym type: common name

Axiom
annotated source: hominoidea
annotated property: hasExactSynonym
annotated target: apes
has synonym type: genbank common name

embryophyta
type: Class
subclass of: streptophytina
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: higher plants
has exact synonym: land plants
has exact synonym: plants
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: embryophyta
annotated property: hasExactSynonym
annotated target: higher plants
has synonym type: common name

Axiom
annotated source: embryophyta
annotated property: hasExactSynonym
annotated target: land plants
has synonym type: common name

Axiom
annotated source: embryophyta
annotated property: hasExactSynonym
annotated target: plants
has synonym type: common name

tetrapoda
type: Class
subclass of: dipnotetrapodomorpha
disjoint with: dipnomorpha
has exact synonym: tetrapods

Axiom
annotated source: tetrapoda
annotated property: hasExactSynonym
annotated target: tetrapods
has synonym type: genbank common name

amniota
type: Class
subclass of: tetrapoda
disjoint with: amphibia
has exact synonym: amniotes

Axiom
annotated source: amniota
annotated property: hasExactSynonym
annotated target: amniotes
has synonym type: genbank common name

theria <mammalia>
type: Class
subclass of: mammalia
has exact synonym: Theria

Axiom
annotated source: theria <mammalia>
annotated property: hasExactSynonym
annotated target: Theria
has synonym type: scientific name

sauria
type: Class
subclass of: sauropsida
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: diapsids
has OBO namespace: ncbi_taxonomy
has related synonym: Diapsida

Axiom
annotated source: sauria
annotated property: hasExactSynonym
annotated target: diapsids
has synonym type: genbank common name

Axiom
annotated source: sauria
annotated property: hasRelatedSynonym
annotated target: Diapsida
has synonym type: synonym

viridiplantae
type: Class
subclass of: eukaryota
disjoint with: opisthokonta
disjoint with: glaucocystophyceae
has rank: NCBITaxon kingdom
has db xref: GC_ID:1
has db xref: PMID:16248873
has db xref: PMID:30257078
has exact synonym: Chlorophyta/Embryophyta group
has exact synonym: chlorophyte/embryophyte group
has exact synonym: green plants
has OBO namespace: ncbi_taxonomy
has related synonym: Chlorobionta
has related synonym: Chloroplastida
has related synonym: green plants

Axiom
annotated source: viridiplantae
annotated property: hasExactSynonym
annotated target: Chlorophyta/Embryophyta group
has synonym type: equivalent name

Axiom
annotated source: viridiplantae
annotated property: hasExactSynonym
annotated target: chlorophyte/embryophyte group
has synonym type: equivalent name

Axiom
annotated source: viridiplantae
annotated property: hasExactSynonym
annotated target: green plants
has synonym type: common name

Axiom
annotated source: viridiplantae
annotated property: hasRelatedSynonym
annotated target: Chlorobionta
has synonym type: synonym

Axiom
annotated source: viridiplantae
annotated property: hasRelatedSynonym
annotated target: Chloroplastida
has synonym type: synonym

Axiom
annotated source: viridiplantae
annotated property: hasRelatedSynonym
annotated target: green plants
has synonym type: blast name

opisthokonta
type: Class
subclass of: eukaryota
disjoint with: glaucocystophyceae
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy
has related synonym: Fungi/Metazoa group
has related synonym: opisthokonts
id: NCBITaxon:33154

Axiom
annotated source: opisthokonta
annotated property: hasRelatedSynonym
annotated target: Fungi/Metazoa group
has synonym type: synonym

Axiom
annotated source: opisthokonta
annotated property: hasRelatedSynonym
annotated target: Fungi/Metazoa group
has synonym type: synonym

Axiom
annotated source: opisthokonta
annotated property: hasRelatedSynonym
annotated target: opisthokonts
has synonym type: synonym

Axiom
annotated source: opisthokonta
annotated property: hasRelatedSynonym
annotated target: opisthokonts
has synonym type: synonym

bilateria
type: Class
subclass of: opisthokonta
disjoint with: fungi

protostomia
type: Class
subclass of: bilateria
disjoint with: deuterostomia
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

deuterostomia
type: Class
subclass of: bilateria
has exact synonym: deuterostomes

Axiom
annotated source: deuterostomia
annotated property: hasExactSynonym
annotated target: deuterostomes
has synonym type: common name

alveolata
type: Class
subclass of: sar
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: alveolates
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: alveolata
annotated property: hasExactSynonym
annotated target: alveolates
has synonym type: genbank common name

stramenopiles
type: Class
subclass of: sar
subclass of: algae
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: heterokonts
has OBO namespace: ncbi_taxonomy
has related synonym: Chromophyta
has related synonym: Heterokonta
has related synonym: Straminipila

Axiom
annotated source: stramenopiles
annotated property: hasExactSynonym
annotated target: heterokonts
has synonym type: genbank common name

Axiom
annotated source: stramenopiles
annotated property: hasRelatedSynonym
annotated target: Chromophyta
has synonym type: in part

Axiom
annotated source: stramenopiles
annotated property: hasRelatedSynonym
annotated target: Heterokonta
has synonym type: synonym

Axiom
annotated source: stramenopiles
annotated property: hasRelatedSynonym
annotated target: Straminipila
has synonym type: synonym

euglenozoa
type: Class
subclass of: discoba
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy
has related synonym: Euglenozoans

Axiom
annotated source: euglenozoa
annotated property: hasRelatedSynonym
annotated target: Euglenozoans
has synonym type: synonym

streptophyta
type: Class
subclass of: viridiplantae
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

haplorrhini
type: Class
subclass of: primates

glaucocystophyceae
type: Class
subclass of: eukaryota
subclass of: algae
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: Glaucophyta
has exact synonym: glaucocystophytes
has OBO namespace: ncbi_taxonomy
has related synonym: Glaucophyceae
has related synonym: algae

Axiom
annotated source: glaucocystophyceae
annotated property: hasExactSynonym
annotated target: glaucocystophytes
has synonym type: common name

Axiom
annotated source: glaucocystophyceae
annotated property: hasRelatedSynonym
annotated target: Glaucophyceae
has synonym type: synonym

Axiom
annotated source: glaucocystophyceae
annotated property: hasRelatedSynonym
annotated target: algae
has synonym type: in part

mammalia
type: Class
subclass of: amniota
disjoint with: sauropsida
has exact synonym: mammals

Axiom
annotated source: mammalia
annotated property: hasExactSynonym
annotated target: mammals
has synonym type: genbank common name

dinosauria
type: Class
subclass of: archosauria
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: dinosaur
has exact synonym: dinosaurs
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: dinosauria
annotated property: hasExactSynonym
annotated target: dinosaur
has synonym type: common name

Axiom
annotated source: dinosauria
annotated property: hasExactSynonym
annotated target: dinosaurs
has synonym type: common name

saurischia
type: Class
subclass of: dinosauria
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

theropoda
type: Class
subclass of: saurischia
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

coelurosauria
type: Class
subclass of: theropoda
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

fungi
type: Class
subclass of: opisthokonta
has rank: NCBITaxon kingdom
has db xref: GC_ID:1
has db xref: PMID:11062127
has db xref: PMID:12684019
has OBO namespace: ncbi_taxonomy
has related synonym: Mycota

Axiom
annotated source: fungi
annotated property: hasRelatedSynonym
annotated target: Mycota
has synonym type: genbank synonym

oomycota
type: Class
subclass of: stramenopiles
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy
has related synonym: Peronosporomycetes
has related synonym: oomycetes

Axiom
annotated source: oomycota
annotated property: hasRelatedSynonym
annotated target: Peronosporomycetes
has synonym type: synonym

Axiom
annotated source: oomycota
annotated property: hasRelatedSynonym
annotated target: oomycetes
has synonym type: blast name

Axiom
annotated source: oomycota
annotated property: hasRelatedSynonym
annotated target: oomycetes
has synonym type: synonym

insecta
type: Class
subclass of: hexapoda
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: true insects
has OBO namespace: ncbi_taxonomy
has related synonym: insects

Axiom
annotated source: insecta
annotated property: hasExactSynonym
annotated target: true insects
has synonym type: genbank common name

Axiom
annotated source: insecta
annotated property: hasRelatedSynonym
annotated target: insects
has synonym type: blast name

rhizaria
type: Class
subclass of: sar
has rank: NCBITaxon clade
has db xref: GC_ID:1
has db xref: PMID:30257078
has OBO namespace: ncbi_taxonomy

tracheophyta
type: Class
subclass of: embryophyta
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: vascular plants
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: tracheophyta
annotated property: hasExactSynonym
annotated target: vascular plants
has synonym type: common name

mollusca
type: Class
subclass of: lophotrochozoa
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has exact synonym: molluscs
has exact synonym: mollusks
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: mollusca
annotated property: hasExactSynonym
annotated target: molluscs
has synonym type: common name

Axiom
annotated source: mollusca
annotated property: hasExactSynonym
annotated target: mollusks
has synonym type: genbank common name

arthropoda
type: Class
subclass of: panarthropoda
has rank: NCBITaxon phylum
has db xref: GC_ID:1
has exact synonym: arthropods
has OBO namespace: ncbi_taxonomy
has related synonym: arthropods

Axiom
annotated source: arthropoda
annotated property: hasExactSynonym
annotated target: arthropods
has synonym type: genbank common name

Axiom
annotated source: arthropoda
annotated property: hasRelatedSynonym
annotated target: arthropods
has synonym type: blast name

crustacea
type: Class
subclass of: pancrustacea
has rank: NCBITaxon subphylum
has db xref: GC_ID:1
has exact synonym: crustaceans
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: crustacea
annotated property: hasExactSynonym
annotated target: crustaceans
has synonym type: genbank common name

hexapoda
type: Class
subclass of: pancrustacea
has rank: NCBITaxon subphylum
has db xref: GC_ID:1
has exact synonym: insects
has OBO namespace: ncbi_taxonomy
has related synonym: Atelocerata
has related synonym: Tracheata
has related synonym: Uniramia
has related synonym: hexapods

Axiom
annotated source: hexapoda
annotated property: hasExactSynonym
annotated target: insects
has synonym type: genbank common name

Axiom
annotated source: hexapoda
annotated property: hasRelatedSynonym
annotated target: Atelocerata
has synonym type: in part

Axiom
annotated source: hexapoda
annotated property: hasRelatedSynonym
annotated target: Tracheata
has synonym type: in part

Axiom
annotated source: hexapoda
annotated property: hasRelatedSynonym
annotated target: Uniramia
has synonym type: in part

Axiom
annotated source: hexapoda
annotated property: hasRelatedSynonym
annotated target: hexapods
has synonym type: blast name

chordata
type: Class
subclass of: deuterostomia
has exact synonym: chordates

Axiom
annotated source: chordata
annotated property: hasExactSynonym
annotated target: chordates
has synonym type: genbank common name

vertebrata <metazoa>
type: Class
subclass of: craniata <chordata>
has exact synonym: Vertebrata
has exact synonym: vertebrates

Axiom
annotated source: vertebrata <metazoa>
annotated property: hasExactSynonym
annotated target: Vertebrata
has synonym type: scientific name

Axiom
annotated source: vertebrata <metazoa>
annotated property: hasExactSynonym
annotated target: vertebrates
has synonym type: genbank common name

gnathostomata <vertebrate>
type: Class
subclass of: vertebrata <metazoa>
has exact synonym: Gnathostomata
has exact synonym: jawed vertebrates

Axiom
annotated source: gnathostomata <vertebrate>
annotated property: hasExactSynonym
annotated target: Gnathostomata
has synonym type: scientific name

Axiom
annotated source: gnathostomata <vertebrate>
annotated property: hasExactSynonym
annotated target: jawed vertebrates
has synonym type: genbank common name

chondrichthyes
type: Class
subclass of: gnathostomata <vertebrate>
subclass of: pisces
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: cartilaginous fishes
has exact synonym: fish
has exact synonym: fishes
has OBO namespace: ncbi_taxonomy
has related synonym: cartilaginous fishes

Axiom
annotated source: chondrichthyes
annotated property: hasExactSynonym
annotated target: cartilaginous fishes
has synonym type: genbank common name

Axiom
annotated source: chondrichthyes
annotated property: hasExactSynonym
annotated target: fish
has synonym type: common name

Axiom
annotated source: chondrichthyes
annotated property: hasExactSynonym
annotated target: fishes
has synonym type: common name

Axiom
annotated source: chondrichthyes
annotated property: hasRelatedSynonym
annotated target: cartilaginous fishes
has synonym type: blast name

dipnomorpha
type: Class
subclass of: dipnotetrapodomorpha
subclass of: pisces
has rank: NCBITaxon subclass
has db xref: GC_ID:1
has exact synonym: dipnoans
has exact synonym: fish
has exact synonym: fishes
has exact synonym: lungfishes
has OBO namespace: ncbi_taxonomy
has related synonym: Choanichthyes
has related synonym: Dipneusti
has related synonym: Dipnoi
has related synonym: Osteichthyes
has related synonym: lungfishes

Axiom
annotated source: dipnomorpha
annotated property: hasExactSynonym
annotated target: dipnoans
has synonym type: common name

Axiom
annotated source: dipnomorpha
annotated property: hasExactSynonym
annotated target: fish
has synonym type: common name

Axiom
annotated source: dipnomorpha
annotated property: hasExactSynonym
annotated target: fishes
has synonym type: common name

Axiom
annotated source: dipnomorpha
annotated property: hasExactSynonym
annotated target: lungfishes
has synonym type: genbank common name

Axiom
annotated source: dipnomorpha
annotated property: hasRelatedSynonym
annotated target: Choanichthyes
has synonym type: in part

Axiom
annotated source: dipnomorpha
annotated property: hasRelatedSynonym
annotated target: Dipneusti
has synonym type: synonym

Axiom
annotated source: dipnomorpha
annotated property: hasRelatedSynonym
annotated target: Dipnoi
has synonym type: synonym

Axiom
annotated source: dipnomorpha
annotated property: hasRelatedSynonym
annotated target: Osteichthyes
has synonym type: in part

Axiom
annotated source: dipnomorpha
annotated property: hasRelatedSynonym
annotated target: lungfishes
has synonym type: blast name

actinopterygii
type: Class
subclass of: euteleostomi
subclass of: pisces
has rank: NCBITaxon superclass
has db xref: GC_ID:1
has exact synonym: fish
has exact synonym: fishes
has exact synonym: ray-finned fishes
has OBO namespace: ncbi_taxonomy
has related synonym: Actinopterygi
has related synonym: Osteichthyes
has related synonym: bony fishes

Axiom
annotated source: actinopterygii
annotated property: hasExactSynonym
annotated target: fish
has synonym type: common name

Axiom
annotated source: actinopterygii
annotated property: hasExactSynonym
annotated target: fishes
has synonym type: common name

Axiom
annotated source: actinopterygii
annotated property: hasExactSynonym
annotated target: ray-finned fishes
has synonym type: genbank common name

Axiom
annotated source: actinopterygii
annotated property: hasRelatedSynonym
annotated target: Actinopterygi
has synonym type: synonym

Axiom
annotated source: actinopterygii
annotated property: hasRelatedSynonym
annotated target: Osteichthyes
has synonym type: in part

Axiom
annotated source: actinopterygii
annotated property: hasRelatedSynonym
annotated target: bony fishes
has synonym type: blast name

sarcopterygii
type: Class
subclass of: euteleostomi

amphibia
type: Class
subclass of: tetrapoda
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: amphibians
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: amphibia
annotated property: hasExactSynonym
annotated target: amphibians
has synonym type: genbank common name

sauropsida
type: Class
subclass of: amniota
has rank: NCBITaxon clade
has db xref: GC_ID:1
has exact synonym: sauropsids
has OBO namespace: ncbi_taxonomy

Axiom
annotated source: sauropsida
annotated property: hasExactSynonym
annotated target: sauropsids
has synonym type: genbank common name

testudines
type: Class
subclass of: testudinata
subclass of: reptilia
has rank: NCBITaxon order
has db xref: GC_ID:1
has db xref: PMID:22839753
has db xref: PMID:25450099
has exact synonym: anapsid reptiles
has exact synonym: turtles
has OBO namespace: ncbi_taxonomy
has related synonym: Anapsida
has related synonym: Reptilia
has related synonym: reptiles

Axiom
annotated source: testudines
annotated property: hasExactSynonym
annotated target: anapsid reptiles
has synonym type: common name

Axiom
annotated source: testudines
annotated property: hasExactSynonym
annotated target: turtles
has synonym type: genbank common name

Axiom
annotated source: testudines
annotated property: hasRelatedSynonym
annotated target: Anapsida
has synonym type: synonym

Axiom
annotated source: testudines
annotated property: hasRelatedSynonym
annotated target: Reptilia
has synonym type: in part

Axiom
annotated source: testudines
annotated property: hasRelatedSynonym
annotated target: reptiles
has synonym type: in part

archosauria
type: Class
subclass of: archelosauria
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

lepidosauria
type: Class
subclass of: sauria
subclass of: reptilia
has rank: NCBITaxon class
has db xref: GC_ID:1
has db xref: PMID:22982760
has exact synonym: lepidosaurs
has OBO namespace: ncbi_taxonomy
has related synonym: Reptilia
has related synonym: lizards
has related synonym: reptiles

Axiom
annotated source: lepidosauria
annotated property: hasExactSynonym
annotated target: lepidosaurs
has synonym type: genbank common name

Axiom
annotated source: lepidosauria
annotated property: hasRelatedSynonym
annotated target: Reptilia
has synonym type: in part

Axiom
annotated source: lepidosauria
annotated property: hasRelatedSynonym
annotated target: lizards
has synonym type: blast name

Axiom
annotated source: lepidosauria
annotated property: hasRelatedSynonym
annotated target: reptiles
has synonym type: in part

aves
type: Class
subclass of: coelurosauria
has rank: NCBITaxon class
has db xref: GC_ID:1
has exact synonym: birds
has OBO namespace: ncbi_taxonomy
has related synonym: avian

Axiom
annotated source: aves
annotated property: hasExactSynonym
annotated target: birds
has synonym type: genbank common name

Axiom
annotated source: aves
annotated property: hasRelatedSynonym
annotated target: avian
has synonym type: synonym

panarthropoda
type: Class
subclass of: ecdysozoa
has rank: NCBITaxon clade
has db xref: GC_ID:1
has OBO namespace: ncbi_taxonomy

craniata <chordata>
type: Class
subclass of: chordata
has exact synonym: Craniata

Axiom
annotated source: craniata <chordata>
annotated property: hasExactSynonym
annotated target: Craniata
has synonym type: scientific name

eutheria
type: Class
subclass of: theria <mammalia>
has exact synonym: eutherian mammals
has exact synonym: placental mammals
has exact synonym: placentals
has related synonym: Placentalia

Axiom
annotated source: eutheria
annotated property: hasExactSynonym
annotated target: eutherian mammals
has synonym type: common name

Axiom
annotated source: eutheria
annotated property: hasExactSynonym
annotated target: placental mammals
has synonym type: common name

Axiom
annotated source: eutheria
annotated property: hasExactSynonym
annotated target: placentals
has synonym type: genbank common name

Axiom
annotated source: eutheria
annotated property: hasRelatedSynonym
annotated target: Placentalia
has synonym type: synonym

primates
type: Class
subclass of: euarchontoglires
has exact synonym: primate
has related synonym: Primata

Axiom
annotated source: primates
annotated property: hasExactSynonym
annotated target: primate
has synonym type: equivalent name

Axiom
annotated source: primates
annotated property: hasRelatedSynonym
annotated target: Primata
has synonym type: synonym

catarrhini
type: Class
subclass of: simiiformes

hominidae
type: Class
subclass of: hominoidea
has exact synonym: great apes
has related synonym: Pongidae

Axiom
annotated source: hominidae
annotated property: hasExactSynonym
annotated target: great apes
has synonym type: genbank common name

Axiom
annotated source: hominidae
annotated property: hasRelatedSynonym
annotated target: Pongidae
has synonym type: synonym

homo
type: Class
subclass of: homininae
has exact synonym: humans

Axiom
annotated source: homo
annotated property: hasExactSynonym
annotated target: humans
has synonym type: common name

homo sapiens
type: Class
subclass of: homo
has exact synonym: human
has exact synonym: man
has related synonym: humans

Axiom
annotated source: homo sapiens
annotated property: hasExactSynonym
annotated target: human
has synonym type: genbank common name

Axiom
annotated source: homo sapiens
annotated property: hasExactSynonym
annotated target: man
has synonym type: common name

impact
type: Class
subclass of: conceptual entity
disjoint with: phenotype
disjoint with: place
disjoint with: benefit
disjoint with: event
disjoint with: status
disjoint with: taxon
disjoint with: origin
disjoint with: zone
disjoint with: system
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
NCIT NHC0: C122929
NCIT P106: Phenomenon or Process
NCIT P207: C4049986
has exact synonym: Impacted
definition: The effect or consequence of an event or condition.

total number
type: Class
subclass of: quantity
NCIT A8: NCIT C101832
NCIT A8: NCIT C101833
NCIT A8: NCIT C127266
NCIT A8: NCIT C127267
NCIT A8: NCIT C61410
NCIT A8: NCIT C66830
NCIT NHC0: C127787
NCIT P106: Quantitative Concept
NCIT P322: CDISC
has exact synonym: TOTNUM
definition: A measurement of the total number of entities.
definition: The determination of the amount of total number of entities.

longevity
type: Class
subclass of: life history trait
disjoint with: generation length
disjoint with: birth rate
NCIT NHC0: C153298
NCIT P106: Conceptual Entity
NCIT P207: C0023980
has exact synonym: lifespan
definition: The length or duration of life or viability.

Geographic Area
type: Class
subclass of: geographical entity
IAO_0000115: Any demarcated area of the Earth; may be determined by both natural and human boundaries.
NCIT NHC0: C16632
NCIT P106: Geographic Area
NCIT P108: Geographic Area
NCIT P207: C0017446
NCIT P322: CDISC
NCIT P325: Any demarcated area of the Earth; may be determined by both natural and human boundaries, such as a state or province.
NCIT P366: Geographic_Area
has exact synonym: Area
has exact synonym: Geographic Area
has exact synonym: Geographic Location
has exact synonym: Geographic Region
has exact synonym: Region
in subset: NCIT C132298
in subset: NCIT C132308
in subset: NCIT C61410

phenotype
type: Class
subclass of: conceptual entity
disjoint with: place
disjoint with: benefit
disjoint with: event
disjoint with: status
disjoint with: taxon
disjoint with: origin
disjoint with: zone
disjoint with: system
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
NCIT NHC0: C16977
NCIT P106: Organism Attribute
NCIT P207: C0031437
definition: The assemblage of traits or outward appearance of an individual. It is the product of interactions between genes and between genes and the environment.
definition: The observable characteristics in an individual resulting from the expression of genes; the clinical presentation of an individual with a particular genotype.

organism characteristic
type: Class
equivalent class: Class
  intersection of: trait
  intersection of: Restriction
    on property: characteristic for
    some values from: organism
subclass of: trait
disjoint with: population group characteristic
disjoint with: ecosystem property
NCIT NHC0: C171083
NCIT P106: Qualitative Concept
has exact synonym: individual trait
definition: A characteristic or attribute inherent or inherited to an organism.

population group characteristic
type: Class
equivalent class: Class
  intersection of: trait
  intersection of: Restriction
    on property: characteristic for
    some values from: population
subclass of: trait
disjoint with: morphological feature
disjoint with: ecosystem property
disjoint with: functional trait
disjoint with: species trait
NCIT NHC0: C171088
NCIT P106: Conceptual Entity
has exact synonym: population group attribute
has exact synonym: population group feature
has exact synonym: population group property
has exact synonym: population group trait
definition: A characteristic or attribute of a population group.

urbanized area
type: Class
subclass of: Geographic Area
disjoint with: rural area
NCIT NHC0: C178428
NCIT P106: Geographic Area
has exact synonym: urban
definition: A delineated geographic area encompassing residential, commercial, and other non-residential urban land uses with a residential population of 50,000 or more people and a density of 1,000 people or more per square mile.

rural area
type: Class
subclass of: Geographic Area
NCIT NHC0: C178430
NCIT P106: Geographic Area
NCIT P207: C0178837
has exact synonym: rural
definition: A non-urbanized geographic area. "Rural" encompasses densely settled small towns with a residential population of less than 2,500 people, more sparsely populated areas, and remote areas.

conceptual entity
type: Class
subclass of: Thing
IAO_0000115: An organizational header for concepts representing mostly abstract entities.
NCIT NHC0: C20181
NCIT P106: Classification
NCIT P108: Conceptual Entity
NCIT P207: C1254372
NCIT P366: Conceptual_Entities
has exact synonym: Conceptual Entity

quantity
type: Class
subclass of: estimate
NCIT A8: NCIT C107226
NCIT A8: NCIT C159501
NCIT A8: NCIT C159502
NCIT NHC0: C25256
NCIT P106: Quantitative Concept
NCIT P207: C1265611
NCIT P322: BRIDG
has exact synonym: amount
definition: How much there is of something that you can measure; the total amount or number.

place
type: Class
subclass of: conceptual entity
disjoint with: benefit
disjoint with: event
disjoint with: status
disjoint with: taxon
disjoint with: system
disjoint with: propagule pressure
disjoint with: invasion phase
disjoint with: estimate
disjoint with: trait
disjoint with: invasion success
NCIT A8: NCIT C159501
NCIT A8: NCIT C159503
NCIT NHC0: C25319
NCIT P106: Spatial Concept
NCIT P207: C0442504
NCIT P322: BRIDG
definition: A bounded physical location which may contain structures. EXAMPLE(S): ambulance, helicopter, manufacturing site, service delivery location, home, emergency department, surgical suite, patient room. NOTE(S): Constraints: Place may be natural or man-made. The geographic position of a place may or may not be constant. Discussion: Places may be work facilities (where relevant acts occur), homes (where people live) or offices (where people work). Places may contain sub-places (floor, room, booth, bed). Places may also be sites that are investigated in the context of health care, social work, public health administration (e.g., buildings, picnic grounds, day care centers, prisons, counties, states, and other focuses of epidemiological events).
definition: The particular portion of space occupied by a physical object or intended for a physical object.

length
type: Class
subclass of: morphological feature
subclass of: functional trait
disjoint with: color
disjoint with: perimeter
disjoint with: endurance
disjoint with: mass
NCIT A8: NCIT C101846
NCIT A8: NCIT C101847
NCIT A8: NCIT C106039
NCIT A8: NCIT C124299
NCIT A8: NCIT C124300
NCIT A8: NCIT C124311
NCIT A8: NCIT C124312
NCIT A8: NCIT C129941
NCIT A8: NCIT C129942
NCIT A8: NCIT C61410
NCIT A8: NCIT C66830
NCIT A8: NCIT C77526
NCIT A8: NCIT C89506
NCIT A8: NCIT C89976
NCIT A8: NCIT C89977
NCIT A8: NCIT C90259
NCIT A8: NCIT C95120
NCIT A8: NCIT C95121
NCIT NHC0: C25334
NCIT P106: Conceptual Entity
NCIT P207: C1444754
NCIT P322: CDISC
NCIT P322: FDA
NCIT P322: NICHD
definition: The linear extent in space from one end of something to the other end, or the extent of something from beginning to end.

width
type: Class
subclass of: morphological feature
subclass of: functional trait
disjoint with: height
disjoint with: color
disjoint with: perimeter
disjoint with: endurance
disjoint with: mass
NCIT A8: NCIT C101846
NCIT A8: NCIT C101847
NCIT A8: NCIT C106039
NCIT A8: NCIT C124299
NCIT A8: NCIT C124300
NCIT A8: NCIT C61410
NCIT A8: NCIT C66830
NCIT A8: NCIT C77526
NCIT A8: NCIT C95120
NCIT A8: NCIT C95121
NCIT NHC0: C25345
NCIT P106: Quantitative Concept
NCIT P207: C0487742
NCIT P322: CDISC
NCIT P322: FDA
has exact synonym: wideness
definition: The extent or measurement of something from side to side.

height
type: Class
subclass of: morphological feature
subclass of: functional trait
disjoint with: color
disjoint with: perimeter
disjoint with: endurance
disjoint with: mass
NCIT A8: NCIT C106039
NCIT A8: NCIT C61410
NCIT A8: NCIT C66741
NCIT A8: NCIT C66830
NCIT A8: NCIT C67153
NCIT A8: NCIT C77526
NCIT A8: NCIT C89415
NCIT A8: NCIT C91101
NCIT NHC0: C25347
NCIT P106: Quantitative Concept
NCIT P207: C0489786
NCIT P322: CDISC
NCIT P322: FDA
NCIT P322: NCPDP
definition: The vertical measurement or distance from the base to the top of an object; the vertical dimension of extension.
definition: Vertical measurement value.

benefit
type: Class
subclass of: conceptual entity
disjoint with: event
disjoint with: taxon
disjoint with: origin
disjoint with: zone
disjoint with: system
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
NCIT NHC0: C25387
NCIT P106: Idea or Concept
NCIT P207: C0814225
definition: The positive effects of something.

change
type: Class
equivalent class: Class
  intersection of: process
  intersection of: Restriction
    on property: affects
    some values from: Class
      union of: continuant
      union of: conceptual entity
subclass of: process
IAO_0000115: The act of alteration or modification; changed or altered in form or character.
NCIT NHC0: C25446
NCIT P106: Qualitative Concept
NCIT P108: Change
NCIT P207: C0392747
NCIT P366: Change
has exact synonym: Adapt
has exact synonym: Adapted
has exact synonym: Change
has exact synonym: Changed
has exact synonym: Modification
has exact synonym: Modified
in subset: NCIT C100096

cycle
type: Class
subclass of: event
NCIT A8: NCIT C165451
NCIT A8: NCIT C175518
NCIT A8: NCIT C183078
NCIT A8: NCIT C67567
NCIT NHC0: C25472
NCIT P106: Temporal Concept
NCIT P207: C0439596
NCIT P322: DIPG/DMG
NCIT P322: ICDC
NCIT P322: UCUM
has exact synonym: cycles
has exact synonym: cyclic
has exact synonym: cylical
definition: An event or sequence of events that constitute a round or succession of observable phenomena, recurring usually at regular or approximately regular time intervals and in the same sequence.

event
type: Class
subclass of: conceptual entity
disjoint with: status
disjoint with: taxon
disjoint with: origin
disjoint with: zone
disjoint with: system
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
NCIT NHC0: C25499
NCIT P207: C0441471
definition: Something that happens at a given place and time.

involvement
type: Class
subclass of: process
disjoint with: allocation
IAO_0000115: To have a connection by participation or association or use; sharing in an activity or process.
NCIT NHC0: C25548
NCIT P106: Qualitative Concept
NCIT P108: Involvement
NCIT P207: C1314939
NCIT P366: Involvement
has exact synonym: Involved
has exact synonym: Involvement

status
type: Class
subclass of: conceptual entity
disjoint with: taxon
disjoint with: origin
disjoint with: zone
disjoint with: system
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
NCIT A8: NCIT C116977
NCIT A8: NCIT C142799
NCIT NHC0: C25688
NCIT P106: Qualitative Concept
NCIT P207: C0449438
NCIT P322: CTRP
definition: A condition or state at a particular time.

color
type: Class
subclass of: morphological feature
disjoint with: anatomical structure
NCIT A8: NCIT C117742
NCIT A8: NCIT C117743
NCIT A8: NCIT C61410
NCIT A8: NCIT C66830
NCIT A8: NCIT C77526
NCIT A8: NCIT C95120
NCIT A8: NCIT C95121
NCIT NHC0: C37927
NCIT P106: Qualitative Concept
NCIT P207: C0009393
NCIT P322: CDISC
has exact synonym: Colour
definition: The appearance of objects (or light sources) described in terms of a person's perception of their hue and lightness (or brightness) and saturation.

taxon
type: Class
subclass of: conceptual entity
disjoint with: origin
disjoint with: zone
disjoint with: system
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
NCIT NHC0: C40098
NCIT P106: Conceptual Entity
NCIT P207: C1515221
has exact synonym: biological taxon
has exact synonym: taxonomy
definition: Ranked categories for the classification of organisms according to their suspected evolutionary relationships.

region
type: Class
subclass of: geographical entity
NCIT NHC0: C41129
NCIT P106: Spatial Concept
NCIT P207: C0205147
definition: An area or portion of something with more or less definite boundaries designed or specified according to some established biological, administrative, economic, demographic, etc. criteria.

origin
type: Class
subclass of: conceptual entity
disjoint with: zone
disjoint with: propagule pressure
disjoint with: invasion phase
disjoint with: estimate
disjoint with: invasion success
NCIT NHC0: C42703
NCIT P106: Conceptual Entity
NCIT P207: C0439659
definition: The place where something begins or comes from in either the sense of a physical location or a metaphysical source.

zone
type: Class
subclass of: conceptual entity
disjoint with: system
disjoint with: propagule pressure
disjoint with: invasion phase
disjoint with: estimate
disjoint with: trait
disjoint with: invasion success
NCIT NHC0: C43428
NCIT P106: Spatial Concept
NCIT P207: C1710706
has exact synonym: zonal
definition: An area or region distinguished from adjacent parts by a distinctive feature or characteristic.
definition: Specifies the location of a zone on an array. (caMAGE)

species
type: Class
subclass of: taxon
NCIT A8: NCIT C83187
NCIT NHC0: C45293
NCIT P106: Conceptual Entity
NCIT P207: C1705920
definition: A group of organisms that differ from all other groups of organisms and that are capable of breeding and producing fertile offspring.

pH
type: Class
subclass of: environmental condition
IAO_0000115: Quantity of dimension one used to express on a scale from 0 to 14 the amount-of-substance concentration of hydrogen ion of dilute aqueous solution, calculated as the logarithm of the reciprocal of hydrogen-ion concentration in gram atoms per liter.
NCIT NHC0: C45997
NCIT P106: Phenomenon or Process
NCIT P107: pH
NCIT P108: pH
NCIT P207: C4048290
NCIT P322: CDISC
NCIT P322: CTRP
NCIT P322: FDA
NCIT P322: UCUM
NCIT P325: The negative logarithm (base 10) of the concentration of hydronium ions, which is used as a measure of the acidity or alkalinity of a fluid.
NCIT P366: pH
has exact synonym: PH
has exact synonym: [pH]
has exact synonym: pH
has exact synonym: potential of Hydrogen
in subset: NCIT C116977
in subset: NCIT C133805
in subset: NCIT C142799
in subset: NCIT C168632
in subset: NCIT C176677
in subset: NCIT C54452
in subset: NCIT C61410
in subset: NCIT C65047
in subset: NCIT C66830
in subset: NCIT C67154
in subset: NCIT C67567
in subset: NCIT C77526

increment
type: Class
subclass of: estimate
NCIT NHC0: C47882
NCIT P106: Quantitative Concept
NCIT P207: C1705117
has exact synonym: incremental
has exact synonym: step
definition: The amount by which something increases.

energy
type: Class
subclass of: resource
disjoint with: nutrient
IAO_0000115: The capacity of a physical system to do work.
NCIT NHC0: C48058
NCIT P106: Natural Phenomenon or Process
NCIT P108: Energy
NCIT P207: C0542479
NCIT P366: Energy
has exact synonym: Energy

island
type: Class
subclass of: land
disjoint with: continent
NCIT NHC0: C48952
NCIT P106: Geographic Area
NCIT P207: C0022130
has exact synonym: isle
definition: A land mass smaller than a continent that is surrounded by water.

section
type: Class
subclass of: Geographic Area
NCIT NHC0: C48956
NCIT P106: Geographic Area
NCIT P207: C3714523
has exact synonym: geographic section
definition: A distinct region or subdivision of a territorial or political area or community.

defense
type: Class
subclass of: compound property
NCIT NHC0: C61556
NCIT P106: Conceptual Entity
NCIT P207: C1880266
definition: A trait or behaviour that is useful for repelling an enemy.
definition: Protection from harm.

neighborhood
type: Class
subclass of: region
NCIT NHC0: C64203
NCIT P106: Spatial Concept
NCIT P207: C0027569
definition: A surrounding or nearby region.

perimeter
type: Class
subclass of: functional trait
disjoint with: endurance
disjoint with: mass
NCIT NHC0: C71612
NCIT P106: Spatial Concept
NCIT P207: C1295726
definition: The size of something as given by the distance around it.

humidity
type: Class
subclass of: environmental condition
disjoint with: nutrient content
NCIT NHC0: C88206
NCIT P106: Conceptual Entity
NCIT P207: C0020167
definition: A measure of the water vapor content of air.

endurance
type: Class
subclass of: functional trait
disjoint with: mass
NCIT NHC0: C89276
NCIT P106: Qualitative Concept
NCIT P207: C0518031
definition: The ability to sustain an activity over a period of time.

housing humidity
type: Class
subclass of: humidity
NCIT A8: NCIT C61410
NCIT A8: NCIT C77526
NCIT A8: NCIT C90007
NCIT A8: NCIT C90009
NCIT NHC0: C90395
NCIT P106: Quantitative Concept
NCIT P207: C2983614
NCIT P322: CDISC
has exact synonym: humidt
definition: The amount of water vapor in the air of a living space.
definition: The percentage of ambient moisture of a living space.

latitude coordinate measurement datum
type: Class
subclass of: geodetic coordinate measurement datum
IAO_0000111: latitude coordinate measurement datum
IAO_0000114: IAO_0000120
IAO_0000115: A measurement datum that is the measure of the latitude coordinate of a site.
IAO_0000118: latitude
IAO_0000119: NIAID GSCID-BRC metadata working group
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
OBI_0001886: Specimen Collection Location - Latitude
source: NIAID GSCID-BRC
created by: Person: Chris Stoeckert, Jie Zheng
000131: true

longitude coordinate measurement datum
type: Class
subclass of: geodetic coordinate measurement datum
IAO_0000111: longitude coordinate measurement datum
IAO_0000114: IAO_0000120
IAO_0000115: A measurement datum that is the measure of the longitude coordinate of a site.
IAO_0000118: longitude
IAO_0000119: NIAID GSCID-BRC metadata working group
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
OBI_0001886: Specimen Collection Location - Longitude
source: NIAID GSCID-BRC
created by: Person: Chris Stoeckert, Jie Zheng
000131: true

scalar value specification
type: Class
subclass of: value specification
IAO_0000111: scalar value specification
IAO_0000114: IAO_0000123
IAO_0000115: A value specification that consists of two parts: a numeral and a unit label
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
created by: PERSON:Bjoern Peters
000131: true

value specification
type: Class
subclass of: information content entity
IAO_0000111: value specification
IAO_0000112: The value of 'positive' in a classification scheme of "positive or negative"; the value of '20g' on the quantitative scale of mass.
IAO_0000114: IAO_0000122
IAO_0000115: An information content entity that specifies a value within a classification scheme or on a quantitative scale.
editor note: This term is currently a descendant of 'information content entity', which requires that it 'is about' something. A value specification of '20g' for a measurement data item of the mass of a particular mouse 'is about' the mass of that mouse. However there are cases where a value specification is not clearly about any particular. In the future we may change 'value specification' to remove the 'is about' requirement.
IAO_0000412: http://purl.obolibrary.org/obo/obi.owl
created by: PERSON:Bjoern Peters
000131: true

quality
type: Class
subclass of: specifically dependent continuant
IAO_0000412: envo.owl
has exact synonym: trait
definition: A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities

composition
type: Class
subclass of: structure
disjoint with: permeability
disjoint with: laminar
has exact synonym: composed of
has exact synonym: compositionality
has exact synonym: content
has exact synonym: structure, composition
definition: A single physical entity inhering in an bearer by virtue of the bearer's quantities or relative ratios of subparts.

morphology
type: Class
subclass of: physical object quality
definition: A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure.

shape
type: Class
subclass of: morphology
disjoint with: amorphous
has exact synonym: relational shape quality
definition: A morphological quality inhering in a bearer by virtue of the bearer's ratios of distances between its features (points, edges, surfaces and also holes etc).

size
type: Class
subclass of: morphology
disjoint with: structure
definition: A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude.

mass
type: Class
subclass of: functional trait
has exact synonym: weight
definition: A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter.

position
type: Class
subclass of: physical quality
disjoint with: radiation quality
disjoint with: wetness
disjoint with: quality of a substance
has exact synonym: location
has exact synonym: placement
has exact synonym: relational spatial quality
definition: A spatial quality inhering in a bearer by virtue of the bearer's spatial location relative to other objects in the vicinity.

structure
type: Class
subclass of: morphology
has broad synonym: conformation
has exact synonym: relational structural quality
definition: A morphology quality inhering in a bearer by virtue of the bearer's relative position, shape, arrangements and connectivity of an organism's various parts; the pattern underlying its form.

opacity
type: Class
subclass of: optical quality
definition: An optical quality which obtains by virtue of the ability of the bearer to absorb visible light.

opaque
type: Class
subclass of: opacity
has exact synonym: non-transparent
has related synonym: clouding
has related synonym: cloudy
definition: A optical quality inhering in a bearer by virtue of the bearer's not being clear; not transmitting or reflecting light or radiant energy.

permeability
type: Class
subclass of: structure
definition: A structural quality inhering in a bearer by virtue of the bearer's disposition to being permeated or pervaded by a gas or liquid (as by osmosis or diffusion).

porosity
type: Class
subclass of: permeability
definition: A permeability quality inhering in a bearer by virtue of the bearer's disposition to admit the passage of gas or liquid through pores or interstices.

porous
type: Class
subclass of: porosity
definition: A porosity quality inhering in a bearer by virtue of the bearer's being capable of admitting the passage of gas or liquid through pores or interstices.

physical quality
type: Class
subclass of: physical object quality
has exact synonym: relational physical quality
definition: A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities.

elongated
type: Class
subclass of: shape
definition: A quality inhering in a bearer by virtue of the bearer's length being notably higher than its width.

strength
type: Class
subclass of: compound property
definition: A quality inhering in a bearer by virtue of the bearer's power or force.

physical object quality
type: Class
subclass of: quality
has exact synonym: monadic quality of a continuant
has exact synonym: multiply inhering quality of a physical entity
has exact synonym: quality of a continuant
has exact synonym: quality of a single physical entity
has exact synonym: quality of an object
has exact synonym: quality of continuant
has narrow synonym: monadic quality of an object
has narrow synonym: monadic quality of continuant
definition: A quality which inheres in a continuant.

electromagnetic (em) radiation quality
type: Class
subclass of: radiation quality
definition: A physical quality that inheres in an bearer by virtue of how that bearer interacts with electromagnetic radiation.

optical quality
type: Class
subclass of: electromagnetic (em) radiation quality
definition: An EM radiation quality in which the EM radiation is within the fiat range of the spectrum visible deemed to be light.

amorphous
type: Class
subclass of: morphology
definition: A morphology quality inhering in a bearer by virtue of the bearer's lack of distinct morphology.

sloped
type: Class
subclass of: shape
definition: A shape quality inhering in a bearer by virtue of the bearer's having an oblique or slanted direction.

elevation
type: Class
subclass of: position
definition: A positional quality inhering in a bearer by virtue of the bearer's vertical distance of a point above or below a reference surface.

radiation quality
type: Class
subclass of: physical quality
disjoint with: wetness
definition: A quality that inheres in an bearer by virtue of how that bearer interacts with radiation.

granular
type: Class
subclass of: composition
definition: A composition quality inhering in a bearer by virtue of the bearer's containing granules.

wetness
type: Class
subclass of: physical quality
definition: A quality inhering in a bearer by virtue of whether the bearer's being covered by a liquid.

wet
type: Class
subclass of: wetness
definition: A wetness quality inhering in a bearer by virtue of the bearer's being covered by a liquid.

laminar
type: Class
subclass of: structure
definition: A quality inhering in a bearer by virtue of the bearer's processing the form of a thin plate sheet or layer.

sloped downward
type: Class
subclass of: sloped

displaced
type: Class
subclass of: position
definition: A positional quality inhering in a bearer by virtue the bearer's being changed in position.

quality of a substance
type: Class
subclass of: physical quality
definition: A quality inhering in a bearer by virtue of its constitution.

collection of organisms
type: Class
equivalent class: Class
  intersection of: material entity
  intersection of: Restriction
    on property: has part
    min qualified cardinality: 2
    on class: Class
      union of: viruses
      union of: organism
subclass of: material entity
disjoint with: geographical entity
disjoint with: organism
disjoint with: resource
definition: A material entity that consists of two or more organisms, viruses, or viroids.

population of organisms
type: Class
equivalent class: Class
  intersection of: single-species collection of organisms
  intersection of: Restriction
    on property: has area
    qualified cardinality: 1
    on class: area
has db xref: ECSO_00000311
definition: A collection of organisms, all of the same species, that live in the same place.

single-species collection of organisms
type: Class
equivalent class: Class
  intersection of: collection of organisms
  intersection of: Restriction
    on property: has part
    qualified cardinality: 1
    on class: species
subclass of: collection of organisms
disjoint with: multi-species collection of organisms
disjoint with: community
definition: A material entity that has as parts two or more organisms, viruses, or viroids of the same species and no members of any other species.

multi-species collection of organisms
type: Class
equivalent class: Class
  intersection of: collection of organisms
  intersection of: Restriction
    on property: has part
    min qualified cardinality: 2
    on class: species
subclass of: collection of organisms
definition: A collection of organisms that consists of two or more organisms from at least two species.

anatomical structure
type: Class
subclass of: morphological feature
has exact synonym: biological structure
has exact synonym: connected biological structure
definition: Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome.

morphological feature
type: Class
subclass of: trait
disjoint with: genetic characteristic
disjoint with: ecosystem property
has exact synonym: morphological attribute
has exact synonym: morphological characteristic
has exact synonym: morphological property
has exact synonym: morphological trait
definition: A part of an organism or organ that is continuous with its surroundings and distinguished from its surroundings based on morphology.

area unit
type: Class
subclass of: measurement unit label
IAO_0000115: A unit which is a standard measure of the amount of a 2-dimensional flat surface.
IAO_0000412: http://purl.obolibrary.org/obo/uo.owl
created by: george gkoutos
has OBO namespace: unit.ontology
id: UO:0000047
in subset: unit group slim
000131: true

DbXref
type: Class
subclass of: data about an ontology part
000131: true

Definition
type: Class
subclass of: data about an ontology part
000131: true

Subset
type: Class
equivalent class: Class
  one of: IAO_0000224
subclass of: data about an ontology part
IAO_0000412: envo.owl
000131: true

Synonym
type: Class
subclass of: data about an ontology part
000131: true

SynonymType
type: Class
subclass of: data about an ontology part
000131: true

system
type: Class
subclass of: conceptual entity
disjoint with: propagule pressure
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
comment: See http://purl.obolibrary.org/obo/RO_0002577
definition: A material entity consisting of multiple components that are causally integrated.

disturbance
type: Class
equivalent class: Class
  intersection of: ecosystem process
  intersection of: Restriction
    on property: affects
    some values from: Class
      union of: community
      union of: resource
      union of: population
subclass of: ecosystem process
definition: A disturbance is an event or process that disrupts ecosystem, community or population structure, and changes resources, substrate availability or the physical environment. Disturbances can have anthropogenic or non-anthropogenic causes.

micronutrient
type: Class
subclass of: nutrient
comment: See http://purl.bioontology.org/ontology/MESH/D018977
definition: Essential dietary elements or organic compounds that are required in only small quantities for normal physiologic processes to occur.

establishment
type: Class
subclass of: invasion success
disjoint with: ecological impact

population size
type: Class
subclass of: population group characteristic
disjoint with: population density
comment: From http://www.fao.org/aims/aos/cwr.owl#PopulationSize
label: taille d'une population @fr
label: tamaño de la población @es
label: размер популяции @ru
definition: It's the amount of individuals in a population

invasive species
type: Class
equivalent class: Class
  intersection of: alien species
  intersection of: Restriction
    on property: completed invasion phase
    some values from: invasion spread phase
  intersection of: Restriction
    on property: completed invasion phase
    some values from: invasion establishment phase
subclass of: alien species
disjoint with: non-invasive species
comment: Alien species that become established and spread beyond the place of introduction are called invasive species.
definition: Alien species that sustain self-replacing populations over several life cycles, produce reproductive offspring, often in very large numbers at considerable distance from the parent and/or site of introduction, and have the potential to spread over long distances.

host organism interaction
type: Class
subclass of: biological process
comment: See http://purl.bioontology.org/ontology/CSP/1035-7240
definition: interactions between one organism and another which it harbors or nourishes.

genetic characteristic
type: Class
subclass of: trait
disjoint with: ecosystem property
disjoint with: functional trait
disjoint with: life history trait
has exact synonym: genetic attribute
has exact synonym: genetic feature
has exact synonym: genetic property
has exact synonym: genetic trait
definition: Information about the genetic characteristics

predator
type: Class
subclass of: enemy
comment: from https://www.thefreedictionary.com/predator
definition: An organism that lives by preying on other organisms.

mineral nutrient
type: Class
subclass of: nutrient
comment: Adapted from https://en.wikipedia.org/wiki/Mineral_%28nutrient%29
definition: Chemical element required by organisms to perform functions necessary for life.

species diversity
type: Class
subclass of: biodiversity

propagule pressure
type: Class
subclass of: conceptual entity
disjoint with: area
disjoint with: invasion phase
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
has exact synonym: introduction effort
definition: A composite measure consisting of the number of individuals introduced per introduction event and the frequency of introduction events.

nutrient
type: Class
subclass of: resource
disjoint with: light
comment: See http://purl.bioontology.org/ontology/MESH/D000078622
definition: Various components of food that are required for nourishment.

genetic change
type: Class
equivalent class: Class
  intersection of: change in individual
  intersection of: Restriction
    on property: affects
    some values from: genetic characteristic
subclass of: change in individual
disjoint with: behavioural change
definition: Any change in the genome of a species

successful
type: Class
subclass of: status
disjoint with: presence
disjoint with: absence
disjoint with: in progress

nutrient salt
type: Class
subclass of: nutrient
definition: Nutrient occurring in the chemical form of salt

light
type: Class
subclass of: resource
comment: See http://purl.bioontology.org/ontology/MESH/D008027
definition: That portion of the electromagnetic spectrum in the visible, ultraviolet, and infrared range.

generation length
type: Class
subclass of: life history trait
disjoint with: birth rate

parasite
type: Class
subclass of: enemy
comment: from https://www.thefreedictionary.com/parasite
definition: An organism that lives and feeds on or in an organism of a different species and causes harm to its host.

ecosystem property
type: Class
equivalent class: Class
  intersection of: trait
  intersection of: Restriction
    on property: characteristic for
    some values from: ecosystem
subclass of: trait
disjoint with: functional trait
disjoint with: species trait
disjoint with: life history trait
has exact synonym: ecosystem attribute
has exact synonym: ecosystem characteristic
has exact synonym: ecosystem feature
has exact synonym: ecosystem trait
comment: from http://www.openness-project.eu/taxonomy/term/73
definition: Attributes which characterize an ecosystem, such as its size, biodiversity, stability, degree of organization, as well as its functions and processes (i.e. the internal exchanges of materials, energy and information among different pools).

change in environment
type: Class
equivalent class: Class
  intersection of: change
  intersection of: Restriction
    on property: affects
    some values from: environmental system
subclass of: change
disjoint with: change in individual
has exact synonym: environmental change
definition: Any change in the environment, e.g. concerning temperature, soil nutrients or biodiversity

resistance
type: Class
subclass of: ecosystem property
disjoint with: diversity
definition: staying essentially unchanged despite the presence of disturbances

generalist
type: Class
subclass of: enemy
disjoint with: specialist
alternative label: generalist enemy
definition: A species that can survive and reproduce in a wide range of environmental conditions using a wide variety of resouces to do so.

role
type: Class
equivalent class: Restriction
  on property: has role
  some values from: role
disjoint with: process
has exact synonym: Functional Role
has exact synonym: Generic Role
has exact synonym: Role, Generic
comment: See http://purl.obolibrary.org/obo/NCIT_C48835
definition: The usual or expected function of something; the part something plays in an action or event.

invasion spread phase
type: Class
subclass of: invasion phase
disjoint with: invasion transport phase
disjoint with: invasion establishment phase
definition: phase of spreading in the alien range as part of the invasion process

process
type: Class
comment: See NCIt:C29862
comment: See SNOMEDCT:415178003
comment: See http://www.ifomis.org/bfo/1.1/span#ProcessualEntity
definition: A process is an entity that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity during the time it occurs.
definition: An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity.

area
type: Class
subclass of: conceptual entity
disjoint with: invasion phase
disjoint with: estimate
disjoint with: trait
disjoint with: invasion success
definition: A geographical region that can include land as well as water.

invasion phase
type: Class
subclass of: conceptual entity
disjoint with: estimate
disjoint with: range
disjoint with: trait
disjoint with: invasion success
definition: Sequential phases during the invasion process. Typically, four different phases are distinguished: transport, introduction, establishment and spread.

secondary nutrient
type: Class
subclass of: nutrient
definition: chemical elements required by organisms in moderate amounts; for plants, these are e.g. sulfur, calcium and magnesium

beta diversity index
type: Class
subclass of: diversity index
definition: metric for estimating beta diversity

species diversity index
type: Class
subclass of: diversity index
comment: the effective number of different species that are represented in a collection of individuals, it consists of two components: species richness and species evenness. From http://cerrado.linkeddata.es/ecology/ccon#SpeciesDiversity

presence
type: Class
subclass of: status
disjoint with: absence
disjoint with: in progress
definition: Being or existing in a specified place or at the specified time.

invasion transport phase
type: Class
subclass of: invasion phase
disjoint with: invasion establishment phase
definition: phase of transportation to the alien range as part of the invasion process

symbiosis
type: Class
subclass of: host organism interaction
comment: See http://purl.bioontology.org/ontology/CSP/1035-7338
definition: state of close, permanent, or obligatory contact between 2 species, usually of a mutually beneficial nature.

geographical entity
type: Class
subclass of: material entity
disjoint with: organism
comment: from https://encyclopedia2.thefreedictionary.com/geographic+entity
definition: An entity or geographic feature that occupies a position in space about which data describing the attributes of the entity and its geographic location are recorded.

phenological change
type: Class
subclass of: change in individual
definition: Any change in the phenology of a species

natural disturbance
type: Class
equivalent class: Class
  intersection of: disturbance
  intersection of: Class
    complement of: human activity
subclass of: disturbance
disjoint with: anthropogenic disturbance
definition: disturbance that happened by some event not directly caused by human activity, e.g. storms or land slides

alien range
type: Class
equivalent class: Class
  intersection of: range
  intersection of: Restriction
    on property: is alien range to
    some values from: species
subclass of: range
disjoint with: native range
alternative label: adventive range
alternative label: exotic range
alternative label: foreign range
alternative label: invaded range
alternative label: non-indigenous range
alternative label: non-native range
alternative label: nonindigenous range
alternative label: nonnative range
definition: An area in which a species occurs even though it lies outside its native range.

functional trait
type: Class
subclass of: trait
has exact synonym: functional attribute
has exact synonym: functional characteristic
has exact synonym: functional feature
has exact synonym: functional property
comment: after Reiss, J., Bridle, J.R., Montoya, J.M. and Woodward, G. 2009. Emerging horizons in biodiversity and ecosystem functioning research. Trends Ecol. Evol., 24: 505-514, and McGill BJ, Enquist BJ, Weiher E, Westoby M (2006) Rebuilding community ecology from functional traits Trends Ecol Evol 21:178-185
definition: A trait that strongly influences organismal performance, and that determines its effect on processes and its response to environmental factors

species evenness index
type: Class
subclass of: diversity index

human activity
type: Class
equivalent class: Class
  intersection of: process
  intersection of: Restriction
    on property: has participant
    some values from: homo sapiens
subclass of: process
disjoint with: invasion
disjoint with: allocation
has exact synonym: human involvement
definition: Actions of human beings that have an influence on the environment and that are characteristic for human societies, i.e. they are linked to social, economic or other cultural processes.

non-invasive species
type: Class
subclass of: alien species
comment: Alien species which are not in the subgroup of invasive species are part of the subgroup non-invasive species.
definition: Alien species that is not an invasive species.

estimate
type: Class
subclass of: conceptual entity
disjoint with: range
disjoint with: trait
disjoint with: invasion success
has exact synonym: measure
has exact synonym: measurement

diversity
type: Class
subclass of: ecosystem property
source: http://soilslab.cfr.washington.edu
comment: From http://www.fao.org/aims/aos/cwr.owl#Diversity
definition: 1) The variety of plant and animal taxa, including genes, amino acids, flowers, species, or populations. 2) The variety of plant and animal communities, forest types, stand conditions, age classes, and landscape components.

ecological measure
type: Class
subclass of: estimate
has exact synonym: ecological estimate
has exact synonym: ecological measurement
definition: metric for qualifying ecologically relevant characteristics, e.g. biodiversity or body length

range
type: Class
subclass of: conceptual entity
disjoint with: trait
disjoint with: invasion success
has exact synonym: geographic range
has exact synonym: geographical range
definition: An area where a species is found in the wild.

community
type: Class
equivalent class: Class
  intersection of: collection of organisms
  intersection of: Restriction
    on property: has part
    min qualified cardinality: 2
    on class: species
  intersection of: Restriction
    on property: located in
    qualified cardinality: 1
    on class: area
subclass of: collection of organisms
has exact synonym: ecological community
comment: definition from: http://purl.obolibrary.org/obo/PCO_000000
definition: A community of at least two different species, living in a particular area. Must have at least two populations of different species as members.

change in individual
type: Class
equivalent class: Class
  intersection of: change
  intersection of: Restriction
    on property: affects
    some values from: organism
subclass of: change
definition: Any change in an individual organism, e.g. concerning its size or life cycle stage

reptilia
type: Class
subclass of: vertebrata <metazoa>
has exact synonym: Reptiles

morphological change
type: Class
equivalent class: Class
  intersection of: change in individual
  intersection of: Restriction
    on property: affects
    some values from: morphological feature
subclass of: change in individual
definition: Any change in the morpholoy of a species

species trait
type: Class
equivalent class: Class
  intersection of: trait
  intersection of: Restriction
    on property: characteristic for
    some values from: species
subclass of: trait
has exact synonym: species attribute
has exact synonym: species characteristic
has exact synonym: species feature
has exact synonym: species property
comment: from https://doi.org/10.1016/j.tree.2006.02.002
definition: A well-defined, measurable property of organisms, usually measured at the individual level and used comparatively across species.

native species
type: Class
subclass of: conceptual entity
disjoint with: alien species
has exact synonym: indigenous species
alternative label: indigenous species
definition: Species that have evolved in a given area or that arrived there by natural means, without the intentional or accidental intervention of humans from an area where they are native.

animal diversity
type: Class
subclass of: biodiversity
disjoint with: plant diversity
disjoint with: genetic diversity
definition: Variety of animal species present in a location

alien species
type: Class
equivalent class: Class
  intersection of: species
  intersection of: Restriction
    on property: completed invasion phase
    some values from: invasion transport phase
equivalent class: Class
  intersection of: species
  intersection of: Restriction
    on property: has alien range
    some values from: area
subclass of: species
has exact synonym: adventive species
has exact synonym: alien species
has exact synonym: exotic species
has exact synonym: foreign species
has exact synonym: introduced species
has exact synonym: non-indigenous species
has exact synonym: non-native species
has exact synonym: nonindigenous species
definition: Species whose presence in a region is attributable to human actions that enable them to overcome biogeographical barriers.

organism
type: Class
equivalent class: Class
  union of: viruses
  union of: bacteria
  union of: archaea
  union of: eukaryota
subclass of: material entity
comment: See http://purl.obolibrary.org/obo/OBI_0100026
definition: A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.

specialist
type: Class
subclass of: enemy
alternative label: specialist enemy
definition: A species that can survive and reproduce only within a narrow range of environmental conditions using specific resources (e.g., a specific diet).

protozoa
type: Class
subclass of: taxon
disjoint with: algae
has exact synonym: Protozoans

algae
type: Class
subclass of: taxon

native range
type: Class
equivalent class: Class
  intersection of: range
  intersection of: Restriction
    on property: is native range to
    some values from: species
subclass of: range
alternative label: indigenous range
definition: A range in which a species has evolved or in which it has arrived by natural means.

trait
type: Class
subclass of: conceptual entity
disjoint with: invasion success
has exact synonym: attribute
has exact synonym: characteristic
has exact synonym: feature
has exact synonym: property
comment: from http://purl.obolibrary.org/obo/NCIT_C25447
definition: The distinguishing qualities or prominent aspect of a person, object, action, process, or substance.

continent
type: Class
subclass of: land
comment: from http://vivoweb.org/ontology/core#Continent
definition: A large contiguous landmass that is at least partially surrounded by water, together with any islands on its continental shelf.

plant nutrient
type: Class
subclass of: nutrient
definition: chemical element required by plants to perform functions necessary for life

morphological phenotype
type: Class
subclass of: phenotype
definition: The form and structure of an organism and its parts, including cells, that result from the interaction of its genotype and the environment. From Bio-Assay Ontology.

animal nutrient
type: Class
subclass of: nutrient
definition: chemical element required by animals to perform functions necessary for life

invasion
type: Class
equivalent class: Class
  intersection of: process
  intersection of: Restriction
    on property: occurs in
    some values from: ecosystem
  intersection of: Restriction
    on property: has participant
    some values from: alien species
subclass of: process
disjoint with: allocation
has exact synonym: biological invasion
has exact synonym: species invasion
definition: The process of transportation, establishment and spread of organisms outside of their native range.

nutrient content
type: Class
subclass of: environmental condition
definition: Amount of nutrients contained in something, e.g in a defined volume of soil or water

beta diversity
type: Class
subclass of: biodiversity
disjoint with: genetic diversity
comment: from https://en.wikipedia.org/wiki/Beta_diversity
definition: In ecology, beta diversity (β-diversity or true beta diversity) is the ratio between regional and local species diversity.

allocation
type: Class
subclass of: process
comment: after https://www.thefreedictionary.com/allocation
definition: To set apart or re-distribute for a special purpose

invasion success
type: Class
equivalent class: Restriction
  on property: completed invasion phase
  some values from: Class
    union of: invasion spread phase
    union of: invasion transport phase
    union of: invasion establishment phase
subclass of: conceptual entity
definition: Completing one or all phases of the invasion process.

invasion establishment phase
type: Class
subclass of: invasion phase
definition: phase of establishment in the alien range as part of the invasion process

ectoparasite
type: Class
subclass of: parasite
comment: from http://www.projecthalo.com/aura#Ectoparasite
definition: A parasite that lives on and feeds from the external surface of the host's body.

pisces
type: Class
subclass of: vertebrata <metazoa>
has exact synonym: Fish
has exact synonym: Fishes

primary nutrient
type: Class
subclass of: nutrient
definition: chemical elements required by organisms in large amounts; for plants, these are nitrogen, phosphorus, and potassium

behavioural change
type: Class
subclass of: change in individual
definition: Any change in the behaviour of a species

life history trait
type: Class
subclass of: trait
has exact synonym: life history characteristic
has exact synonym: life history feature
has exact synonym: life history property
has exact synonym: life histrory attribute

absence
type: Class
subclass of: status
disjoint with: in progress
has exact synonym: not present
definition: Not existing in a specified place at a specified time.

population survival
type: Class
subclass of: invasion success
disjoint with: ecological impact
definition: The process of remaining alive or in existence.

birth rate
type: Class
equivalent class: Class
  intersection of: life history trait
  intersection of: Restriction
    on property: is natality of
    some values from: population
subclass of: life history trait
has exact synonym: natality
has exact synonym: natality rate
comment: The rate in which new borns are added to a population, or in other words, the number of new borns over time.

in progress
type: Class
subclass of: status

resource
type: Class
subclass of: material entity
definition: Abiotic environmental factor necessary for survival, growth, and reproduction, such as water, light, mineral nutrients, and various forms of fixed carbon (e.g. plant material or meat).

plant diversity
type: Class
subclass of: biodiversity
definition: Variety of plant species present in a location

undisturbed ecosystem
type: Class
subclass of: ecosystem
definition: An ecosystem that has not been subject to disturbance.

population density
type: Class
subclass of: population group characteristic
source: Blackwell’s concise encyclopedia of ecology, 1999
comment: From http://www.fao.org/aims/aos/cwr.owl#PopulationDensity
label: densidad de población @es
label: densité de population @fr
label: густота популяции @ru
definition: The number of individuals per unit area.

compound property
type: Class
subclass of: trait
has exact synonym: compound attribute
has exact synonym: compound characteristic
has exact synonym: compound feature
has exact synonym: compound trait
definition: Attribute resulting from a combination of several traits

subcontinent
type: Class
subclass of: land
comment: from https://www.thefreedictionary.com/subcontinent
definition: A large landmass, such as India, that is part of a continent but is considered either geographically or politically as an independent entity.

physiological change
type: Class
subclass of: change in individual
definition: Any change in the physioloy of a species

trace element
type: Class
subclass of: nutrient
comment: See http://purl.bioontology.org/ontology/MESH/D014131
definition: A group of chemical elements that are needed in minute quantities for the proper growth, development, and physiology of an organism. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)

species richness index
type: Class
subclass of: diversity index

ecological impact
type: Class
subclass of: impact
subclass of: invasion success
has exact synonym: environmental impact
has related synonym: impact
definition: A measurable change to the properties of an ecosystem by a non-native species.

competitive strength
type: Class
subclass of: strength
definition: A species is strongly competitive, if its way of using shared resources usually leads to a reduction in survivorship, growth and/or reproduction of at least some of the competing individuals of the other species.

phenotypic plasticity
type: Class
subclass of: organism characteristic
definition: The capacity of a genotype to produce different phenotypes in different environments.

enemy
type: Class
equivalent class: Class
  intersection of: role
  intersection of: Restriction
    on property: is enemy of
    some values from: species
subclass of: role
has exact synonym: natural enemy
definition: An organism that is a predator, consumer, parasite, parasitoid or pathogen of another organism.

anthropogenic disturbance
type: Class
equivalent class: Class
  intersection of: disturbance
  intersection of: human activity
  intersection of: Restriction
    on property: occurs in
    some values from: ecosystem
subclass of: disturbance
subclass of: human activity
has exact synonym: human disturbance
definition: disturbance brought about by human activity

population
type: Class
subclass of: species
has db xref: population of organisms
comment: Chase LeCroy, orcid.org/0000-0002-1338-9436
comment: From http://purl.dataone.org/odo/ECSO_00000311.
comment: This class should be incorporated into ENVO.
comment: WordNet
comment: a group of organisms of the same species inhabiting a given area
comment: http://www.physicalgeography.net/fundamentals/9d.html
definition: A population comprises all the individuals of a given species in a specific area or region at a certain time.

genetic diversity
type: Class
subclass of: biodiversity
comment: from https://en.wikipedia.org/wiki/Genetic_diversity
definition: Genetic diversity is the total number of genetic characteristics in the genetic makeup of a species, it ranges widely from the number of species to differences within species and can be attributed to the span of survival for a species. It is distinguished from genetic variability, which describes the tendency of genetic characteristics to vary.

biotic acceptance
type: Class
equivalent class: Restriction
  on property: affects
  some values from: native biodiversity
subclass of: community dynamics
subclass of: invasive species
definition: Biotic acceptance is a concept in invasion biology that suggests that ecosystems with high native species diversity are more likely to accept invasive species, as opposed to resisting them.

community resilience
type: Class
equivalent class: Restriction
  on property: enhance
  some values from: ecosystem stability
subclass of: community dynamics
subclass of: resistance
definition: Community resilience refers to the ability of a community of organisms to withstand, recover, and adapt to the impacts of invasive species, maintaining its structure, function, and dynamics.

community study
type: Class
equivalent class: Restriction
  on property: analyzes
  some values from: species interactions
subclass of: community
subclass of: invasion biology
definition: A community study refers to the examination and analysis of the interactions, dynamics, and characteristics of a community of organisms, particularly focusing on the impact and role of invasive species within that community.

detritivore
type: Class
equivalent class: Restriction
  on property: enhances
  some values from: nutrient cycling
subclass of: species
definition: A detritivore is an organism that feeds on dead organic material, particularly plant detritus, playing a crucial role in the decomposition process and nutrient cycling within ecosystems.

dominance
type: Class
subclass of: ecological impact
equivalent class: Restriction
  on property: drives
  some values from: native species decline
definition: Dominance refers to the ability of an invasive species to exert control over a community by outcompeting native species for resources, thereby altering community dynamics and ecosystem processes.

ecological disruption
type: Class
subclass of: ecological impact
definition: Ecological disruption involves significant changes to ecosystem structure and function due to invasive species, leading to loss of biodiversity and altered ecosystem services.

ecosystem dynamics
type: Class
subclass of: ecological impact
definition: Ecosystem dynamics cover the changes and processes within ecosystems driven by both native and invasive species, including nutrient flows and energy cycles.

ecosystem stability
type: Class
subclass of: ecosystem property
definition: Ecosystem stability in invasion biology refers to the ability of an ecosystem to maintain its structure and function in the face of external stressors, including the introduction and spread of invasive species.

fire frequency
type: Class
equivalent class: Restriction
  on property: affects
  some values from: species survival
subclass of: environmental condition
definition: Fire frequency refers to the rate at which fires occur in a given area over a specified period of time. In the context of invasion biology, it is an important factor influencing the dynamics of ecosystems, particularly in how it affects the establishment and spread of invasive species.

generalist herbivore
type: Class
equivalent class: Restriction
  on property: impacts
  some values from: ecosystem dynamics
subclass of: generalist
definition: A generalist herbivore is an organism that feeds on a wide variety of plant species, rather than specializing in a particular type of plant. In the context of invasion biology, generalist herbivores can have significant impacts on ecosystems by consuming native and non-native plant species, potentially facilitating the spread of invasive plants.

host availability
type: Class
equivalent class: Restriction
  on property: influences
  some values from: species distribution
subclass of: invasion success
subclass of: invasion establishment phase
definition: Host availability refers to the presence and accessibility of suitable hosts for a species, particularly in the context of invasive species and their ability to establish and spread in a new environment.

dispersal mechanisms
type: Class
subclass of: biological process
definition: Insight into dispersal mechanisms in invasion biology involves understanding the various ways invasive species spread across landscapes, including natural dispersal processes like wind and water, and anthropogenic factors such as global trade.

invasion biology
type: Class
equivalent class: Restriction
  on property: examines
  some values from: pathways of species introduction
subclass of: invasion
definition: Invasion biology is the study of the causes and consequences of the introduction of species to new environments, where they establish, spread, and have impacts on native ecosystems and biodiversity.

invasion event
type: Class
equivalent class: Restriction
  on property: affects
  some values from: native species
subclass of: event
definition: An invasion event refers to the occurrence of a species entering and establishing itself in a new ecosystem, potentially causing ecological impacts.

invasion pattern
type: Class
equivalent class: Restriction
  on property: provides
  some values from: dispersal mechanisms
subclass of: invasion
definition: Invasion pattern refers to the specific sequence or manner in which an invasive species spreads and establishes itself in a new environment. It encompasses the stages of introduction, establishment, and spread, and is influenced by various ecological, biological, and environmental factors.

invasion process
type: Class
equivalent class: Restriction
  on property: disrupts
  some values from: local ecosystems
subclass of: invasion
definition: The invasion process refers to the sequence of events and mechanisms through which non-native species establish, spread, and impact new environments, often leading to ecological changes.

invasion rate
type: Class
equivalent class: Restriction
  on property: influences
  some values from: population dynamics
subclass of: estimate
definition: Invasion rate refers to the speed or frequency at which an invasive species spreads into new areas within a given time frame. It is a critical measure in invasion biology to assess the potential impact and management needs of invasive species.

invasive plant
type: Class
equivalent class: Restriction
  on property: displaces
  some values from: native species
subclass of: invasive species
definition: An invasive plant is a species of plant that is not native to a specific location and has a tendency to spread, which can cause damage to the environment, human economy, or human health.

invasive species populations
type: Class
subclass of: population of organisms
definition: Invasive species populations in invasion biology refer to the groups of non-native organisms that establish, proliferate, and expand across new territories, often impacting local ecosystems.

invasive weed
type: Class
equivalent class: Restriction
  on property: displaces
  some values from: native vegetation
subclass of: invasive species
definition: An invasive weed is a type of plant that is not native to a specific location and has a tendency to spread, which can cause damage to the environment, human economy, or human health.

local ecosystems
type: Class
subclass of: ecosystem
definition: Local ecosystems in invasion biology refer to specific ecological communities within a defined geographical area, each with unique interactions and susceptibilities to the impacts of invasive species.

manual removal
type: Class
equivalent class: Restriction
  on property: reduces
  some values from: invasive species populations
subclass of: involvement
subclass of: human activity
definition: Manual removal refers to the physical extraction of invasive species by human effort, often used as a management strategy in invasion biology to control or eradicate non-native species from an ecosystem.

mutualistic interaction
type: Class
equivalent class: Restriction
  on property: facilitates
  some values from: species coexistence
subclass of: community dynamics
subclass of: symbiosis
definition: A mutualistic interaction is a type of symbiosis where two or more species interact in a way that is beneficial to all involved parties. In the context of invasion biology, mutualistic interactions can influence the success and impact of invasive species by providing them with advantages such as increased resources, protection, or dispersal opportunities.

native biodiversity
type: Class
subclass of: biodiversity
definition: Native biodiversity in invasion biology refers to the variety and variability of native species within an ecological community, crucial for ecosystem resilience and stability.

native ecosystems
type: Class
subclass of: natural environment
definition: Native ecosystems in invasion biology are those ecosystems that have developed naturally without human intervention and are characterized by well-established native species populations and ecological processes.

native species decline
type: Class
subclass of: ecological impact
definition: Native species decline in invasion biology examines the decrease in native species populations due to factors such as habitat loss, competition from invasive species, and environmental changes.

native vegetation
type: Class
subclass of: vegetated area
definition: Native vegetation refers to plant species that are indigenous to a region, playing a critical role in maintaining ecological balance and resisting invasive species.

nutrient cycling
type: Class
subclass of: hydrological process
definition: Nutrient cycling examines how invasive species can alter the rates of nutrient intake, recycling, and distribution within an ecosystem.

original community
type: Class
equivalent class: Restriction
  on property: experiences
  some values from: ecological disruption
subclass of: community
definition: Original community refers to the assemblage of native species and their interactions within a specific ecosystem prior to the introduction of alien species.

pathways of species introduction
type: Class
subclass of: environmental condition
definition: Pathways of species introduction are the routes through which non-native species are introduced into new environments, including natural dispersal and human-related activities.

population dynamics
type: Class
subclass of: biological process
definition: Population dynamics in invasion biology refers to the study of how invasive species populations change over time and space, affected by births, deaths, and migration rates.

species coexistence
type: Class
subclass of: community dynamics
definition: Species coexistence in invasion biology examines how different species live together in the same habitat, focusing on the mechanisms that enable competing species to coexist and how these mechanisms are disrupted by invasive species.

species distribution
type: Class
subclass of: species trait
definition: Species distribution in invasion biology studies the geographical spread of species, particularly how invasive species expand beyond their native ranges, influencing biodiversity and ecosystem structure.

species interactions
type: Class
subclass of: ecological impact
definition: Species interactions in invasion biology involve the various ways species influence each other within an ecosystem, including competition, predation, parasitism, and mutualism, which can be significantly altered by invasive species.

species number
type: Class
equivalent class: Restriction
  on property: quantifies
  some values from: ecosystem diversity
subclass of: species richness
definition: Species number refers to the count of distinct species present in a given area or ecosystem, often used as a measure of biodiversity and an indicator of ecological health, particularly in the context of invasion biology where it can reflect the impact of invasive species on native biodiversity.

species survival
type: Class
subclass of: ecological measure
definition: Species survival in invasion biology refers to the capability of native or invasive species to maintain populations under environmental pressures and competitive interactions.

ecosystem diversity
type: Class
subclass of: diversity
definition: The diversity of ecosystems refers to the range of different ecosystems found within a specific geographic area, each with unique structures, species compositions, and ecological functions, which can be impacted variably by invasive species.

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