pco_import.obo

format-version: 1.2
ontology: envo/imports/pco_import
owl-axioms: Prefix(owl:=<http://www.w3.org/2002/07/owl#>)\nPrefix(rdf:=<http://www.w3.org/1999/02/22-rdf-syntax-ns#>)\nPrefix(xml:=<http://www.w3.org/XML/1998/namespace>)\nPrefix(xsd:=<http://www.w3.org/2001/XMLSchema#>)\nPrefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)\n\n\nOntology(\n\n\nAnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/PCO_0000029> \"\"@en)\n)

[Term]
id: PCO:0000000
name: collection of organisms
def: "A material entity that consists of two or more organisms, viruses, or viroids." []
comment: May be of the same or different species.
is_a: PCO:0000031 ! organismal entity
property_value: IAO:0000112 "Examples include: population, community, species (meaning the collection of organisms that makes up a species, not the taxonomic rank), and family." xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000118 "group of organism" xsd:string
property_value: IAO:0000118 "organism collection" xsd:string

[Term]
id: PCO:0000001
name: population of organisms
def: "A collection of organisms, all of the same species, that live in the same place." []
comment: It is sometimes difficult to define the physical boundaries of a population. In the case of sexually reproducing organisms, the individuals within a population have the potential to reproduce with one another during the course of their lifetimes. 'Community', as often used to describe a group of humans, is a type of population of organisms. \n\nClasses for population already  exist in IDO ('organism population', IDO_0000509) and OBI ('population', OBI_0000181). The definitions should be standardized across OBO Foundry ontologies and only one term used.
is_a: PCO:0000018 ! single-species collection of organisms
property_value: IAO:0000112 "" xsd:string
property_value: IAO:0000112 "This a general term that can include every organism of a species living in an area or any subset of them.  Subclasses can be more specific as needed." xsd:string
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000119 ISBN:0878932739 xsd:string

[Term]
id: PCO:0000002
name: ecological community
def: "A multi-species collection of organisms of at least two different species, living in a particular area. Must have at least two populations of different species as members." []
comment: Ecological community is defined broadly here, but includes both ecological interactions (inherited from parent term community) and spatial co-existence. It may be used to describe every organisms living in an area, but is often used to refer only to organisms of a particular taxon or guild (e.g., the plant community, the insect community, the herbivore community). The word community, as it often used to describe a group of humans living together, is a type of single-species collection of organisms, not an ecological community.
is_a: PCO:0000029 ! multi-species collection of organisms
property_value: IAO:0000118 "multispecies community" xsd:string
property_value: IAO:0000119 ISBN:0865423504 xsd:string

[Term]
id: PCO:0000018
name: single-species collection of organisms
def: "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." []
is_a: PCO:0000000 ! collection of organisms
property_value: IAO:0000114 IAO:0000120
property_value: IAO:0000118 "collection of organisms of the same species" xsd:string

[Term]
id: PCO:0000029
name: multi-species collection of organisms
def: "A collection of organisms that consists of two or more organisms from at least two species." []
is_a: PCO:0000000 ! collection of organisms
property_value: IAO:0000114 IAO:0000123
property_value: IAO:0000116 "Need to add axiom to specify that it has at a mimum members of two different species, but not sure how to specify that. Can't say \"('has member' only ('member of' min 2 'species as a collection of organisms'))\"." xsd:string

[Term]
id: PCO:0000031
name: organismal entity
def: "A material entity that is one or more organisms, viruses or viroids." []
property_value: IAO:0000114 IAO:0000120

[Term]
id: PCO:0000051
name: multi-species collection of microbes
def: "A multi-species collection of organisms that consists of two or more microbes from at least two species." []
is_a: PCO:0000029 ! multi-species collection of organisms
property_value: http://purl.org/dc/elements/1.1/creator https://orcid.org/0000-0001-8815-0078 xsd:string

[Term]
id: PCO:1000004
name: microbial community
def: "An ecological community which is composed of co-existing populations of microbial organisms that interact, directly or indirectly, such that they impact one another's ecological fitness." []
comment: The definition of a microbial species is deeply debated, however, units of phylogenetic and functional diversity are recognised with respect to their varying roles in an ecosystem. In turn, there exist multiple operational definitions of microbial community, such as local, phenomenological, and indexical communities. This class seeks to capture microbial communities in a very broad sense, as collections of phylogenetically and functionally divergent microbial organisms co-existing, potentially interacting, and competing for niche space in the same ecosystem over a period of time in which their causal footprints overlap one another.
synonym: "microbiota" BROAD []
is_a: PCO:0000002 ! ecological community
is_a: PCO:0000051 ! multi-species collection of microbes
property_value: IAO:0000114 IAO:0000125
property_value: IAO:0000116 "A class for a collection of organisms considered \"microbial\" and an accompanying quality in PATO (e.g. \"microscopic\") would be useful to better axiomatise this class. See https://github.com/PopulationAndCommunityOntology/pco/issues/22" xsd:string
property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string
property_value: IAO:0000119 http://dx.doi.org/10.1038/ismej.2009.88 xsd:string