]> Alan Ruttenberg Barry Smith Albert Goldfain Alexander Diehl Lindsay Cowell 2009-08-14 The core Infectious Disease Ontology is an ontology of entities generally relevant to both the biomedical and clinical aspects of infectious diseases, such as 'pathogen', 'host', 'vector', and 'vaccine'. The structure of IDO adheres to the Basic Formal Ontology. Terms in IDO that are within the scope of other OBO Foundry ontologies, such as the Gene Ontology, are derived from those ontologies. Other terms are defined as much as possible as cross-products of terms from Foundry ontologies. For more information, see http://www.infectiousdiseaseontology.org/Home.html This ontology is in early development. Expect it to change. cellular component extracellular space 'dead-end host role'-IDO:0000000: A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that has the infectious disposition but the host cannot transmit (TRANS:0000000) the partner to its definitive host. The role is realized during the entire process of symbiosis. id 'process'-ID[O]:0000000 from IDO 2007. May have replacement - TBD id for 'dead-end host role'-IDO:0000000 replaced by http://purl.obolibrary.org/obo/IDO_0000412 (ID collision) _obsolete_dead-end host role _obsolete_process 'paratenic host role'-IDO:0000001: A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that utilizes the host to undergo a developmental stage transition, but the host is not required for continuation of the partner's life cycle. The role is realized in the developmental processes of the host's partner in symbiosis. id 'role'-ID[O]:0000001 from IDO 2007. May have replacement - TBD id for 'paratenic host role'-IDO:0000001 replaced by http://purl.obolibrary.org/obo/IDO_0000411 (ID collision) _obsolete_paratenic host role _obsolete_role 'host role'-IDO:0000002: A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403), it is the larger of the organisms participating in the symbiosis, and it provides an environment or nutrient resources in or on itself for the survival of its partner in symbiosis. The role is realized in the processes in which the host makes the relevant resources available to its partner in symbiosis. id 'quality'-ID[O]:0000002 from IDO 2007. May have replacement - TBD id for 'host role'-IDO:0000002 replaced by http://purl.obolibrary.org/obo/IDO_0000408 (ID collision) _obsolete_host role _obsolete_quality 'invasive disposition'-IDO:0000003: A disposition inhering in an organism (x) by virtue of the fact that it has the infectious disposition relative to organisms of type Y, and during symbiosis (GO:0044403), the x can initiate processes, the result of which is penetration of the epithelial barriers of some Y. id 'object'-ID[O]:0000003 from IDO 2007. May have replacement - TBD id for 'invasive disposition'-IDO:0000003 replaced by http://purl.obolibrary.org/obo/IDO_0000451 (ID collision) _obsolete_invasive disposition _obsolete_object 'long-term nonprogressing infectious disease course'-IDO:0000004: An infectious disease course during which there is a long period in which the host of infectious agent in whom the disease disposition has been realized does not progress to a more severe form of disease. 'the degree of pathogenicitynnpathogenicity and virulence are used in some communities as synonyms.'-ID[O]:0000004: the degree of pathogenicitynnpathogenicity and virulence are used in some communities as synonyms. id 'virulence'-ID[O]:0000004 from IDO 2007. May have replacement - TBD id for 'long-term nonprogressing infectious disease course'-IDO:0000004 replaced by http://purl.obolibrary.org/obo/IDO_0000496 (ID collision) _obsolete_long-term nonprogressing infectious disease course _obsolete_virulence id 'swollen'-ID[O]:0000005 from IDO 2007. May have replacement - TBD _obsolete_swollen 'susceptibility'-IDO:0000006: A quality inhering in a material entity (x) that is the degree to which another material entity can harm x. id 'toxicity'-ID[O]:0000006 from IDO 2007. May have replacement - TBD id for 'susceptibility'-IDO:0000006 replaced by http://purl.obolibrary.org/obo/IDO_0000467 (ID collision) _obsolete_susceptibility _obsolete_toxicity 'resistance quality'-IDO:0000007: A quality that inheres in a bearer by virtue of the fact that the bearer has low susceptibility to some entity. id 'active'-ID[O]:0000007 from IDO 2007. May have replacement - TBD id for 'resistance quality'-IDO:0000007 replaced by http://purl.obolibrary.org/obo/IDO_0000571 (ID collision) _obsolete_active _obsolete_resistance quality id 'contagious'-ID[O]:0000008 from IDO 2007. May have replacement - TBD _obsolete_contagious 'endemic quality of infectious disease X'-IDO:0000009: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X, 2) by virtue of the fact that infections of the organism type that causes infectious disease X are maintained in the population without the need for transmission into the population from hosts that are not members of the population. Infectious diseases that are typical or common to a particular population are referred to as endemic. 'infection has occurred, but it might not have manifested itselfnquality of being in a non replicative statentime to manifest itself na pathogen when it is in a non replicative state'-ID[O]:0000009: infection has occurred, but it might not have manifested itselfnquality of being in a non replicative statentime to manifest itself na pathogen when it is in a non replicative state id 'latency'-ID[O]:0000009 from IDO 2007. May have replacement - TBD id for 'endemic quality of infectious disease X'-IDO:0000009 replaced by http://purl.obolibrary.org/obo/IDO_0000490 (ID collision) _obsolete_endemic quality of infectious disease X _obsolete_latency 'prevalence of infectious disease X'-IDO:0000010: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the number of realizations of infectious disease X that exist at a specified time. id 'immunosuppressed'-ID[O]:0000010 from IDO 2007. May have replacement - TBD id for 'prevalence of infectious disease X'-IDO:0000010 replaced by http://purl.obolibrary.org/obo/IDO_0000485 (ID collision) _obsolete_immunosuppressed _obsolete_prevalence of infectious disease X 'seroprevalence of infection X'-IDO:0000011: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role for organisms of type X and 2) is the number of organisms in the population that have antibody specific for the infectious organism in their serum at a specified time. id 'exogenous'-ID[O]:0000011 from IDO 2007. May have replacement - TBD id for 'seroprevalence of infection X'-IDO:0000011 replaced by http://purl.obolibrary.org/obo/IDO_0000488 (ID collision) _obsolete_exogenous _obsolete_seroprevalence of infection X 'sterilizing immunity to infectious organism'-IDO:0000012: An immunity to infectious organism that prevents the infectious organism from establishing an infection or results in elimination of the infectious organism from the host organism. id 'immunity'-ID[O]:0000012 from IDO 2007. May have replacement - TBD id for 'sterilizing immunity to infectious organism'-IDO:0000012 replaced by http://purl.obolibrary.org/obo/IDO_0000449 (ID collision) _obsolete_immunity _obsolete_sterilizing immunity to infectious organism 'intermediate host role'-IDO:0000013: A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that utilizes the host to undergo a developmental stage transition, and the host is required for continuation of the partner's life cycle. The role is realized in the developmental processes of the host's partner in symbiosis. id 'protective'-ID[O]:0000013 from IDO 2007. May have replacement - TBD id for 'intermediate host role'-IDO:0000013 replaced by http://purl.obolibrary.org/obo/IDO_0000410 (ID collision) _obsolete_intermediate host role _obsolete_protective id 'temperature'-ID[O]:0000015 from IDO 2007. May have replacement - TBD _obsolete_temperature id 'inactivated'-ID[O]:0000016 from IDO 2007. May have replacement - TBD _obsolete_inactivated id 'mortality'-ID[O]:0000017 from IDO 2007. May have replacement - TBD _obsolete_mortality 'transporter of infectious organism role'-IDO:0000018: A role borne by a material entity by virtue of the fact that the entity has (1) a part which is the location of an organism that has the infectious disposition and (2) the capability to transfer (either actively or passively) the infectious organism from one location to another. The role is realized in processes that transfer the infectious organism from one location to another. id 'pandemic'-ID[O]:0000018 from IDO 2007. May have replacement - TBD id for 'transporter of infectious organism role'-IDO:0000018 replaced by http://purl.obolibrary.org/obo/IDO_0000417 (ID collision) _obsolete_pandemic _obsolete_transporter of infectious organism role 'antibiotic disposition'-IDO:0000019: An antimicrobial disposition that, when realized, results in the death or inhibited growth of bacteria. 'total number of cases of a particular disease at a given time in a particular population divided by the number of individuals in that particular populationnnthe burden of a disease in a population'-ID[O]:0000019: total number of cases of a particular disease at a given time in a particular population divided by the number of individuals in that particular populationnnthe burden of a disease in a population id 'prevalence'-ID[O]:0000019 from IDO 2007. May have replacement - TBD id for 'antibiotic disposition'-IDO:0000019 replaced by http://purl.obolibrary.org/obo/IDO_0000442 (ID collision) _obsolete_antibiotic disposition _obsolete_prevalence 'antifungal disposition'-IDO:0000020: An antimicrobial disposition that, when realized, results in the death or inhibited growth of fungal organisms. id 'epidemic'-ID[O]:0000020 from IDO 2007. May have replacement - TBD id for 'antifungal disposition'-IDO:0000020 replaced by http://purl.obolibrary.org/obo/IDO_0000441 (ID collision) _obsolete_antifungal disposition _obsolete_epidemic 'antiparasitic disposition'-IDO:0000021: A disposition that inheres in a material entity by virtue of the fact that the entity can kill or inhibit the growth of eukaryotic parasites. id 'infected'-ID[O]:0000021 from IDO 2007. May have replacement - TBD id for 'antiparasitic disposition'-IDO:0000021 replaced by http://purl.obolibrary.org/obo/IDO_0000443 (ID collision) _obsolete_antiparasitic disposition _obsolete_infected 'antiviral disposition'-IDO:0000022: An antimicrobial disposition that, when realized, results in the death or inhibited growth of viruses. id 'live'-ID[O]:0000022 from IDO 2007. May have replacement - TBD id for 'antiviral disposition'-IDO:0000022 replaced by http://purl.obolibrary.org/obo/IDO_0000440 (ID collision) _obsolete_antiviral disposition _obsolete_live id 'zoonotic'-ID[O]:0000023 from IDO 2007. May have replacement - TBD _obsolete_zoonotic 'symbiont role'-IDO:0000024: A role borne by an organism by virtue of the fact that it is participating in the process of symbiosis (GO:0044403). The role is realized in the process of symbiosis. id 'immunocompromised'-ID[O]:0000024 from IDO 2007. May have replacement - TBD id for 'symbiont role'-IDO:0000024 replaced by http://purl.obolibrary.org/obo/IDO_0000400 (ID collision) _obsolete_immunocompromised _obsolete_symbiont role 'mutualist role'-IDO:0000025: A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) from which both symbionts derive a growth, survival, or fitness advantage. The role is realized in the processes that result in the growth, survival, or fitness advantage of either organism. 'the ability of the biotic entity to cause disease in a host of a given typenndo we need to say damage instead of disease?nnpathogenicity and virulence are used as synonyms in some communities'-ID[O]:0000025: the ability of the biotic entity to cause disease in a host of a given typenndo we need to say damage instead of disease?nnpathogenicity and virulence are used as synonyms in some communities id 'pathogenicity'-ID[O]:0000025 from IDO 2007. May have replacement - TBD id for 'mutualist role'-IDO:0000025 replaced by http://purl.obolibrary.org/obo/IDO_0000401 (ID collision) _obsolete_mutualist role _obsolete_pathogenicity 'commensal role'-IDO:0000026: A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with an organism from which it can derive a growth, survival, or fitness advantage, but the other organism is neither advantaged nor disadvantaged by the symbiosis. The role is realized in the processes that result in the commensal's growth, survival, or fitness advantage. id 'tropism'-ID[O]:0000026 from IDO 2007. May have replacement - TBD id for 'commensal role'-IDO:0000026 replaced by http://purl.obolibrary.org/obo/IDO_0000402 (ID collision) _obsolete_commensal role _obsolete_tropism 'parasite role'-IDO:0000027: A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with an organism from which it can derive a growth, survival, or fitness advantage while that organism's growth, survival, or fitness is reduced. The role is realized in the processes that result in the parasite's growth, survival, or fitness advantage or in the other organism's growth, survival, or fitness reduction. id 'drug resistance'-ID[O]:0000027 from IDO 2007. May have replacement - TBD id for 'parasite role'-IDO:0000027 replaced by http://purl.obolibrary.org/obo/IDO_0000403 (ID collision) _obsolete_drug resistance _obsolete_parasite role 'host of parasite role'-IDO:0000028: A host role borne by an organism by virtue of the fact that it is participating in a symbiosis process (GO:0044403) with an organism which derives from the host a growth, survival, or fitness advantage while the host's growth, survival, or fitness is reduced. The partner in symbiosis is playing the parasite role. The role is realized in the processes that result in the parasite's growth, survival, or fitness advantage or in the host's growth, survival, or fitness reduction. id 'antibiotic resistance'-ID[O]:0000028 from IDO 2007. May have replacement - TBD id for 'host of parasite role'-IDO:0000028 replaced by http://purl.obolibrary.org/obo/IDO_0000413 (ID collision) _obsolete_antibiotic resistance _obsolete_host of parasite role 'number of new cases in a given period of time'-ID[O]:0000029: number of new cases in a given period of time id 'incidence'-ID[O]:0000029 from IDO 2007. May have replacement - TBD _obsolete_incidence 'definitve host role'-IDO:0000030: A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that, while in the host, reaches developmental maturity and reproduces sexually, if it is a sexually reproducing organism. The role is realized in the developmental and reproduction processes of the host's partner in symbiosis. id 'invasive'-ID[O]:0000030 from IDO 2007. May have replacement - TBD id for 'definitve host role'-IDO:0000030 replaced by http://purl.obolibrary.org/obo/IDO_0000409 (ID collision) _obsolete_definitve host role _obsolete_invasive id 'endogenous'-ID[O]:0000031 from IDO 2007. May have replacement - TBD _obsolete_endogenous id 'attenuated'-ID[O]:0000032 from IDO 2007. May have replacement - TBD _obsolete_attenuated 'colonized quality of host'-IDO:0000033: A quality inhering in an organism by virtue of the fact that the organism is the bearer of the host role in a symbiosis process (GO:0044403). id 'morbidity'-ID[O]:0000033 from IDO 2007. May have replacement - TBD id for 'colonized quality of host'-IDO:0000033 replaced by http://purl.obolibrary.org/obo/IDO_0000459 (ID collision) _obsolete_colonized quality of host _obsolete_morbidity 'host resistance to infectious organism'-IDO:0000034: A protective resistance that inheres in an organism (x) of type X by virtue of the fact that 1) in symbiosis between an organism of type X and an organism of type Y, X have the capability to play the host of infectious agent role, and Y have the capability to play the infectious agent role, and 2) x has a part with a disposition, the realization of which prevents an essential subprocess of the processes of establishing or maintaining infection or protects the host from damaging effects of the infection. The prevention or protection is not of type immune system process (GO:0002376). id 'endemic'-ID[O]:0000034 from IDO 2007. May have replacement - TBD id for 'host resistance to infectious organism'-IDO:0000034 replaced by http://purl.obolibrary.org/obo/IDO_0000446 (ID collision) _obsolete_endemic _obsolete_host resistance to infectious organism 'susceptibility to infectious organism'-IDO:0000035: A susceptibility that inheres in an organism (x) of type X relative to an organism of type Y 1) by virtue of the fact that Y have the infectious disposition relative to X, and X have the capability to bear the host of infectious agent role in symbiosis with some Y, and is 2) the likelihood that x will participate in a symbiosis process (GO:0044403) with some Y in which it plays the host of infectious agent role, or 3) the degree to which x can be harmed by participation in the symbiosis process or by pathoglocial processes that are the realization of an infectious disease caused by Y. id 'fusion protein'-ID[O]:0000035 from IDO 2007. May have replacement - TBD id for 'susceptibility to infectious organism'-IDO:0000035 replaced by http://purl.obolibrary.org/obo/IDO_0000468 (ID collision) _obsolete_fusion protein _obsolete_susceptibility to infectious organism id 'colonizer'-ID[O]:0000036 from IDO 2007. May have replacement - TBD _obsolete_colonizer id 'commensal'-ID[O]:0000037 from IDO 2007. May have replacement - TBD _obsolete_commensal id 'parasite'-ID[O]:0000038 from IDO 2007. May have replacement - TBD _obsolete_parasite id 'symbiant'-ID[O]:0000039 from IDO 2007. May have replacement - TBD _obsolete_symbiant 'role played by a portion of substance to promote virulencennmagnitudendegree of pathogenesis'-ID[O]:0000040: role played by a portion of substance to promote virulencennmagnitudendegree of pathogenesis id 'virulence factor'-ID[O]:0000040 from IDO 2007. May have replacement - TBD _obsolete_virulence factor id 'route of entry'-ID[O]:0000041 from IDO 2007. May have replacement - TBD _obsolete_route of entry id 'invasin'-ID[O]:0000042 from IDO 2007. May have replacement - TBD _obsolete_invasin id 'toxin'-ID[O]:0000043 from IDO 2007. May have replacement - TBD _obsolete_toxin id 'endotoxin'-ID[O]:0000044 from IDO 2007. May have replacement - TBD _obsolete_endotoxin id 'exotoxin'-ID[O]:0000045 from IDO 2007. May have replacement - TBD _obsolete_exotoxin id 'sign'-ID[O]:0000046 from IDO 2007. May have replacement - TBD _obsolete_sign id 'treatment'-ID[O]:0000047 from IDO 2007. May have replacement - TBD _obsolete_treatment 'look at mathias's ontology of cancer to get all the subterms...its under quality there'-ID[O]:0000048: look at mathias's ontology of cancer to get all the subterms...its under quality there id 'symptom'-ID[O]:0000048 from IDO 2007. May have replacement - TBD _obsolete_symptom 'vehicle of infectious organism role'-IDO:0000049: A transporter of infectious organism role borne by a material entity by virtue of the fact that the entitiy is either not alive or is not a complete organism. id 'antimicrobial'-ID[O]:0000049 from IDO 2007. May have replacement - TBD id for 'vehicle of infectious organism role'-IDO:0000049 replaced by http://purl.obolibrary.org/obo/IDO_0000421 (ID collision) _obsolete_antimicrobial _obsolete_vehicle of infectious organism role 'portal of exit of infectious organism role'-IDO:0000050: A role borne by an anatomical entity (FMA ID) by virtue of the fact that 1) the anatomical entity is part of an organism (x) of type X, 2) x is participating in a process of transmitting x, and 3) the anatomical entity serves as the site through which infectious organism exits x. The role is realized in the process by which the infectious organism exits x. id 'medicine'-ID[O]:0000050 from IDO 2007. May have replacement - TBD id for 'portal of exit of infectious organism role'-IDO:0000050 replaced by http://purl.obolibrary.org/obo/IDO_0000431 (ID collision) _obsolete_medicine _obsolete_portal of exit of infectious organism role 'portal of entry of infectious organism role'-IDO:0000051: A role borne by an anatomical entity (FMA ID) by virtue of the fact that 1) the anatomical entity is part of an organism (x) of type X, 2) x is participating in a process of establishing an infection in x, and 3) the anatomical entity serves as the site through which infectious organism enters x. The role is realized in the process by which the infectious organism enters x. id 'therapeutic'-ID[O]:0000051 from IDO 2007. May have replacement - TBD id for 'portal of entry of infectious organism role'-IDO:0000051 replaced by http://purl.obolibrary.org/obo/IDO_0000430 (ID collision) _obsolete_portal of entry of infectious organism role _obsolete_therapeutic id 'vaccine'-ID[O]:0000052 from IDO 2007. May have replacement - TBD _obsolete_vaccine 'endemic level of infectious disease X'-IDO:0000053: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) that is the prevalence of infectious disease X that is typical for the specified population. id 'antibiotic'-ID[O]:0000053 from IDO 2007. May have replacement - TBD id for 'endemic level of infectious disease X'-IDO:0000053 replaced by http://purl.obolibrary.org/obo/IDO_0000491 (ID collision) _obsolete_antibiotic _obsolete_endemic level of infectious disease X 'role played by portion of physical substance which promotes colonization'-ID[O]:0000054: role played by portion of physical substance which promotes colonization id 'colonization factor'-ID[O]:0000054 from IDO 2007. May have replacement - TBD _obsolete_colonization factor 'role played by portion of physical substance utilized by an organism in order to establish adherence to a surface in a host'-ID[O]:0000055: role played by portion of physical substance utilized by an organism in order to establish adherence to a surface in a host 'sporadic quality of infectious disease X'-IDO:0000055: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X, 2) by virtue of the fact that infections of the infectious organism that causes disease X occur in the population with a fluctuating prevalence. id 'adhesion factor'-ID[O]:0000055 from IDO 2007. May have replacement - TBD id for 'sporadic quality of infectious disease X'-IDO:0000055 replaced by http://purl.obolibrary.org/obo/IDO_0000494 (ID collision) _obsolete_adhesion factor _obsolete_sporadic quality of infectious disease X 'hyper-endemic quality of infectious disease X'-IDO:0000056: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X, 2) by virtue of the fact that the endemic level of infectious disease X is persistently high in the population. A hyper-endemic disease affects all age groups equally. id 'host'-ID[O]:0000056 from IDO 2007. May have replacement - TBD id for 'hyper-endemic quality of infectious disease X'-IDO:0000056 replaced by http://purl.obolibrary.org/obo/IDO_0000493 (ID collision) _obsolete_host _obsolete_hyper-endemic quality of infectious disease X id 'carrier'-ID[O]:0000057 from IDO 2007. May have replacement - TBD _obsolete_carrier 'incidence proportion of infectious disease X'-IDO:0000058: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the incidence of infectious disease X divided by the number of members of the population in which the infectious disease course had not begun at the beginning of the specified period of time. id 'chronic carrier'-ID[O]:0000058 from IDO 2007. May have replacement - TBD id for 'incidence proportion of infectious disease X'-IDO:0000058 replaced by http://purl.obolibrary.org/obo/IDO_0000481 (ID collision) _obsolete_chronic carrier _obsolete_incidence proportion of infectious disease X 'holding place for a potential pathogen...animate or inanimate'-ID[O]:0000059: holding place for a potential pathogen...animate or inanimate id 'reservoir'-ID[O]:0000059 from IDO 2007. May have replacement - TBD _obsolete_reservoir 'inanimate holder, is water a fomite or only a reservoir?'-ID[O]:0000060: inanimate holder, is water a fomite or only a reservoir? 'infectious disease epidemic'-IDO:0000060: A process in which there is a relatively significant increase in the incidence of infectious disease X, relative to the endemic level of infectious disease X, in an organism population located in a geographicaly connected region. id 'fomite'-ID[O]:0000060 from IDO 2007. May have replacement - TBD id for 'infectious disease epidemic'-IDO:0000060 replaced by http://purl.obolibrary.org/obo/IDO_0000502 (ID collision) _obsolete_fomite _obsolete_infectious disease epidemic 'infectious disease pandemic'-IDO:0000061: A process in which multiple infectious disease epidemics of the same infectious disease affect organism populations located in different geographic regions, including different countries and continents, and unfold over overlapping periods of time. id 'mobile genetic element'-ID[O]:0000061 from IDO 2007. May have replacement - TBD id for 'infectious disease pandemic'-IDO:0000061 replaced by http://purl.obolibrary.org/obo/IDO_0000503 (ID collision) _obsolete_infectious disease pandemic _obsolete_mobile genetic element 'herd immunity to infectious organism'-IDO:0000062: A protective resistance that inheres in a population of organisms by virtue of the fact that a sufficient number of members of the population have immunity to an infectious organism thereby reducing transmission (TRANS:0000000) and protecting non-immune members from the infectious organism population. The population in which an instance of herd immunity inheres is composed of members that are organisms of the same type, X, have the capability to play the host of infectious agent role in symbiosis with an organism that has the infectious disposition relative to X, and are frequent participants in processes that would transmit the infectious organism between members of the population. id 'pathogenicity island'-ID[O]:0000062 from IDO 2007. May have replacement - TBD id for 'herd immunity to infectious organism'-IDO:0000062 replaced by http://purl.obolibrary.org/obo/IDO_0000447 (ID collision) _obsolete_herd immunity to infectious organism _obsolete_pathogenicity island 'holder and a carrier (actively transmits) and living: potentially make a cross product. every vector comes into contact with the target. (from one host to another?)'-ID[O]:0000063: holder and a carrier (actively transmits) and living: potentially make a cross product. every vector comes into contact with the target. (from one host to another?) id 'vector'-ID[O]:0000063 from IDO 2007. May have replacement - TBD _obsolete_vector 'variolation'-IDO:0000064: An active immunization process in which smallpox is introduced in the form of a scab from a pustule into an organism to induce immunity against smallpox. id 'pathogen'-ID[O]:0000064 from IDO 2007. May have replacement - TBD id for 'variolation'-IDO:0000064 replaced by http://purl.obolibrary.org/obo/IDO_0000500 (ID collision) _obsolete_pathogen _obsolete_variolation 'immunization against infectious organism'-IDO:0000065: A process by which an organism acquires immunity to an infectious organism. id 'dependovirus'-ID[O]:0000065 from IDO 2007. May have replacement - TBD id for 'immunization against infectious organism'-IDO:0000065 replaced by http://purl.obolibrary.org/obo/IDO_0000497 (ID collision) _obsolete_dependovirus _obsolete_immunization against infectious organism 'passive immunization'-IDO:0000066: An immunization process that begins with transfer to an organism of molecules not produced by that organism and that confer immunity against an infectious organism or product of an infectious organism. Examples include the injection of antibodies and the transfer of maternal antibodies to the fetus. id 'infectious agent'-ID[O]:0000066 from IDO 2007. May have replacement - TBD id for 'passive immunization'-IDO:0000066 replaced by http://purl.obolibrary.org/obo/IDO_0000501 (ID collision) _obsolete_infectious agent _obsolete_passive immunization 'vaccination'-IDO:0000067: An active immunization process that begins with exposure of an organism to a vaccine. id 'opportunistic pathogen'-ID[O]:0000067 from IDO 2007. May have replacement - TBD id for 'vaccination'-IDO:0000067 replaced by http://purl.obolibrary.org/obo/IDO_0000499 (ID collision) _obsolete_opportunistic pathogen _obsolete_vaccination 'active immunization against infectious organism'-IDO:0000068: An immunization process that begins with exposure of an organism to antigen and results in immunity against an infectious organism. id 'emerging pathogen'-ID[O]:0000068 from IDO 2007. May have replacement - TBD id for 'active immunization against infectious organism'-IDO:0000068 replaced by http://purl.obolibrary.org/obo/IDO_0000498 (ID collision) _obsolete_active immunization against infectious organism _obsolete_emerging pathogen 'incidence rate of infectious disease X'-IDO:0000069: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the incidence proportion if infectious disease X divided by the period of time over which the incidence was measured. id 'primary pathogen'-ID[O]:0000069 from IDO 2007. May have replacement - TBD id for 'incidence rate of infectious disease X'-IDO:0000069 replaced by http://purl.obolibrary.org/obo/IDO_0000483 (ID collision) _obsolete_incidence rate of infectious disease X _obsolete_primary pathogen 'incidence of infectious disease X'-IDO:0000070: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the number of realizations of the infectious disease for which the infectious disease course (the realization of the disease) begins during a specified period of time. Incidence is used as a measure of risk. id 'prion'-ID[O]:0000070 from IDO 2007. May have replacement - TBD id for 'incidence of infectious disease X'-IDO:0000070 replaced by http://purl.obolibrary.org/obo/IDO_0000479 (ID collision) _obsolete_incidence of infectious disease X _obsolete_prion 'mortality rate of infectious disease X'-IDO:0000071: A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the proportion of deaths in the population resulting from the disease over a specified period of time. id 'initiation of infection'-ID[O]:0000071 from IDO 2007. May have replacement - TBD id for 'mortality rate of infectious disease X'-IDO:0000071 replaced by http://purl.obolibrary.org/obo/IDO_0000489 (ID collision) _obsolete_initiation of infection _obsolete_mortality rate of infectious disease X id 'disruption of body surface'-ID[O]:0000072 from IDO 2007. May have replacement - TBD _obsolete_disruption of body surface id 'disruption of normal microbioflora'-ID[O]:0000073 from IDO 2007. May have replacement - TBD _obsolete_disruption of normal microbioflora 'create cross products for 'host' and 'pathogen' that will be part of this process.'-ID[O]:0000074: create cross products for 'host' and 'pathogen' that will be part of this process. id 'pathogen adherence to host cell'-ID[O]:0000074 from IDO 2007. May have replacement - TBD _obsolete_pathogen adherence to host cell 'enterotoxin role'-IDO:0000075: A exotoxin role borne by a protein or macromolecular complex by virtue of the fact that it is secreted by a pathogenic organism during symbiosis into the host intestine and damages cells of the host intestinal mucosa. id 'nonspecific adherence'-ID[O]:0000075 from IDO 2007. May have replacement - TBD id for 'enterotoxin role'-IDO:0000075 replaced by http://purl.obolibrary.org/obo/IDO_0000428 (ID collision) _obsolete_enterotoxin role _obsolete_nonspecific adherence 'adhesion factor disposition'-IDO:0000076: A disposition inhering in a protein or macromolecular complex by virtue of the fact that it has the capability to bind (GO:0005488) to a part of a host organism during symbiosis (GO:0044403) resulting in adherence of the organism producing the protein or complex to host cell surfaces or extracellular matrix (GO BP adherence to host GO:0044406). The disposition is realized in the adherence to host process. id 'specific adherence'-ID[O]:0000076 from IDO 2007. May have replacement - TBD id for 'adhesion factor disposition'-IDO:0000076 replaced by http://purl.obolibrary.org/obo/IDO_0000437 (ID collision) _obsolete_adhesion factor disposition _obsolete_specific adherence id 'afimbrial specific adherence'-ID[O]:0000077 from IDO 2007. May have replacement - TBD _obsolete_afimbrial specific adherence 'virulence factor role'-IDO:0000078: A role borne by a protein or macromolecular complex by virtue of the fact that it 1) is produced by an organism (x) that has the pathogenic disposition to organisms of type Y and 2) has the capability to participate in a process that improves survival of x in an organism of type Y, improves transmission (TRANS:0000000) of x, and/or causes disease in organisms of type Y. The role is realized in the those processes. id 'fimbrial specific adherence'-ID[O]:0000078 from IDO 2007. May have replacement - TBD id for 'virulence factor role'-IDO:0000078 replaced by http://purl.obolibrary.org/obo/IDO_0000425 (ID collision) _obsolete_fimbrial specific adherence _obsolete_virulence factor role 'invasion factor disposition'-IDO:0000079: A disposition inhering in a protein or macromolecular complex by virtue of the fact that 1) it has the capability to participate in processes that facilitate the breach of host epithelial barriers or entry into and survival in host cells, and 2) the processes would not occur without such a particular protein or macromolecular complex as a participant. The disposition is realized in these processes. id 'penetration of epithelial barrier'-ID[O]:0000079 from IDO 2007. May have replacement - TBD id for 'invasion factor disposition'-IDO:0000079 replaced by http://purl.obolibrary.org/obo/IDO_0000438 (ID collision) _obsolete_invasion factor disposition _obsolete_penetration of epithelial barrier 'toxin of pathogen role'-IDO:0000080: A virulence factor role borne by a protein or macromolecular complex by virtue of the fact that it causes I) malfunction of cells, ii) damage to extracellular matrix, or iii) damage of cells to a degree that can result in cell death. The role is realized in a process that is part of the disease course for a disease caused by the pathogen. id 'penetration via injury of epithelial barrier'-ID[O]:0000080 from IDO 2007. May have replacement - TBD id for 'toxin of pathogen role'-IDO:0000080 replaced by http://purl.obolibrary.org/obo/IDO_0000426 (ID collision) _obsolete_penetration via injury of epithelial barrier _obsolete_toxin of pathogen role id 'transcytosis'-ID[O]:0000081 from IDO 2007. May have replacement - TBD _obsolete_transcytosis 'endotoxin role'-IDO:0000082: A toxin of pathogen role borne by a protein or protein complex by virtue of the fact that it is released from a cell that is a pathogenic organism only upon cytolysis. 'exotoxin role'-IDO:0000082: A toxin of pathogen role borne by a protein or macromolecular complex by virtue of the fact that it is secreted by a pathogenic organism and damages cells or extracellular matrix by a direct enzymatic process. id 'utilization of membranous cell gateway'-ID[O]:0000082 from IDO 2007. May have replacement - TBD id for 'endotoxin role'-IDO:0000082 replaced by http://purl.obolibrary.org/obo/IDO_0000429 (ID collision) id for 'exotoxin role'-IDO:0000082 replaced by http://purl.obolibrary.org/obo/IDO_0000427 (ID collision) _obsolete_endotoxin role _obsolete_exotoxin role _obsolete_utilization of membranous cell gateway 'opportunistic pathogen role'-IDO:0000083: A pathogen role borne by an organism by virtue of the fact that it causes disease or death only in organisms whose defenses against pathogens are compromised. This includes individuals who are immunocompromised or who have damaged barriers that normally protect against infection (e.g. skin). 'the process by which an infectious agent passes from one organism to another organism'-ID[O]:0000083: the process by which an infectious agent passes from one organism to another organism id 'transmission'-ID[O]:0000083 from IDO 2007. May have replacement - TBD id for 'opportunistic pathogen role'-IDO:0000083 replaced by http://purl.obolibrary.org/obo/IDO_0000406 (ID collision) _obsolete_opportunistic pathogen role _obsolete_transmission 'GO:nthe specific processes that generate the ability of an organism to cause disease in anothernnnThis is defined in GO so import.'-ID[O]:0000084: GO:nthe specific processes that generate the ability of an organism to cause disease in anothernnnThis is defined in GO so import. id 'pathogenesis'-ID[O]:0000084 from IDO 2007. May have replacement - TBD _obsolete_pathogenesis id 'penetration of host cell'-ID[O]:0000085 from IDO 2007. May have replacement - TBD _obsolete_penetration of host cell id 'engulfment'-ID[O]:0000086 from IDO 2007. May have replacement - TBD _obsolete_engulfment id 'fusion with host cell membrane'-ID[O]:0000087 from IDO 2007. May have replacement - TBD _obsolete_fusion with host cell membrane id 'membrane invagination'-ID[O]:0000088 from IDO 2007. May have replacement - TBD _obsolete_membrane invagination id 'passage through cell membrane'-ID[O]:0000089 from IDO 2007. May have replacement - TBD _obsolete_passage through cell membrane id 'engulfment by nonphagocyte'-ID[O]:0000090 from IDO 2007. May have replacement - TBD _obsolete_engulfment by nonphagocyte 'symptomatic quality'-IDO:0000091: A quality inhering in an organism by virtue of the fact that the organism has a disorder, the conferred disease disposition is realized, and the organism has symptoms of the disease. id 'engulfment by phagocyte'-ID[O]:0000091 from IDO 2007. May have replacement - TBD id for 'symptomatic quality'-IDO:0000091 replaced by http://purl.obolibrary.org/obo/IDO_0000462 (ID collision) _obsolete_engulfment by phagocyte _obsolete_symptomatic quality 'aymptomatic'-IDO:0000092: A quality inhering in a bearer of the host role by virtue of the fact that the host is infected but has no signs or symptoms; has infection but lacks symptoms, or disease is realzied by lakcs symptoms id 'damaging host cells and tissues in subepithelial space'-ID[O]:0000092 from IDO 2007. May have replacement - TBD id for 'aymptomatic'-IDO:0000092 replaced by http://purl.obolibrary.org/obo/IDO_0000569 (ID collision) _obsolete_aymptomatic _obsolete_damaging host cells and tissues in subepithelial space 'mechanical vector of infectious organism role'-IDO:0000093: A vector of infectious organism role borne by an organism by virtue of the fact that the infectious organism does not multiply in or on the vector. id 'induction of damaging host immune response'-ID[O]:0000093 from IDO 2007. May have replacement - TBD id for 'mechanical vector of infectious organism role'-IDO:0000093 replaced by http://purl.obolibrary.org/obo/IDO_0000419 (ID collision) _obsolete_induction of damaging host immune response _obsolete_mechanical vector of infectious organism role 'biological vector of infectious organism role'-IDO:0000094: A vector of infectious organism role borne by an organism by virtue of the fact that the infectious organism multiplies in or on the vector. id 'pathogen-induced apoptosis'-ID[O]:0000094 from IDO 2007. May have replacement - TBD id for 'biological vector of infectious organism role'-IDO:0000094 replaced by http://purl.obolibrary.org/obo/IDO_0000420 (ID collision) _obsolete_biological vector of infectious organism role _obsolete_pathogen-induced apoptosis 'infectious disease course'-IDO:0000095: A disease course that is the total process of realization of the infectious disease (disposition), beginning with the manifestation of pathological processes caused by the infectious disorder and ending with 1) clearance of the infectious disorder, 2) long-term control of the infection by the host's immune response accompanied by the resolution of symptoms, or 3) death of the host. id 'pathogen-induced necrosis'-ID[O]:0000095 from IDO 2007. May have replacement - TBD id for 'infectious disease course'-IDO:0000095 replaced by http://purl.obolibrary.org/obo/IDO_0000495 (ID collision) _obsolete_infectious disease course _obsolete_pathogen-induced necrosis 'infection'-IDO:0000096: A population of infectious organisms (of type X) located within an organism site of organism y, such that (1) X has the infectious disposition relative to Y, (2) y has the capability to bear the host of infectious agent role for x, and (3) the population of infectious organisms have the collective capability to cause disease when occupying a particular part of the site. [END] [Maybe include what follows as a term 'microbiota infection'?](3) if part of a configuration of normal resident microbiota for organism type Y has the capability to be a part of an infection when the configuration part (1) occupies anatomical sites that are not part of its typical habitat such that the configuration part has the collective capability to cause disease when occupying that site (e.g., Staph aureus moving from the skin to the blood), or (2) acquires the collective capability via a process of overgrowth. id 'virus-induced cytopathogenesis'-ID[O]:0000096 from IDO 2007. May have replacement - TBD id for 'infection'-IDO:0000096 replaced by http://purl.obolibrary.org/obo/IDO_0000517 (ID collision) _obsolete_infection _obsolete_virus-induced cytopathogenesis 'symptomatic host of infectious agent'-IDO:0000097: A host of infectious agent role played by a material entity by virtue of the fact that it has symptoms of the infectious disease associated with the infectious agent id 'pathogen spread through host'-ID[O]:0000097 from IDO 2007. May have replacement - TBD id for 'symptomatic host of infectious agent'-IDO:0000097 replaced by http://purl.obolibrary.org/obo/IDO_0000573 (ID collision) _obsolete_pathogen spread through host _obsolete_symptomatic host of infectious agent 'comment about the instances:nncollections of etiologically connected cases of infectious disease in a given population'-ID[O]:0000098: comment about the instances:nncollections of etiologically connected cases of infectious disease in a given population 'susceptible population'-IDO:0000098: An organism population whose members lack any protective resistance disposition to a specific infectious organism. id 'infectious disease'-ID[O]:0000098 from IDO 2007. May have replacement - TBD id for 'susceptible population'-IDO:0000098 replaced by http://purl.obolibrary.org/obo/IDO_0000514 (ID collision) _obsolete_infectious disease _obsolete_susceptible population 'diseased population'-IDO:0000099: An infected population in whose members the infectious disease caused by the infectious organism is realized. id for 'diseased population'-IDO:0000099 replaced by http://purl.obolibrary.org/obo/IDO_0000512 (ID collision) _obsolete_diseased population 'subclinical'-IDO:0000100: A quality that inheres in an infection by virtue of the fact that the host is asymptomatic. id 'pathogen evasion of host immune response'-ID[O]:0000100 from IDO 2007. May have replacement - TBD id for 'subclinical'-IDO:0000100 replaced by http://purl.obolibrary.org/obo/IDO_0000570 (ID collision) _obsolete_pathogen evasion of host immune response _obsolete_subclinical 'the process by which an infectious disease establishes itself in a new population (or at a sufficiently higher rate? higher prevalence and/or higher incidence)'-ID[O]:0000101: the process by which an infectious disease establishes itself in a new population (or at a sufficiently higher rate? higher prevalence and/or higher incidence) id 'emergence'-ID[O]:0000101 from IDO 2007. May have replacement - TBD _obsolete_emergence 'local quality of infection'-IDO:0000102: A quality that inheres in an infection by virtue of the fact that the organisms comprising the infection are limited to a relatively small area of the host's body. id 'epidemiological spread of disease'-ID[O]:0000102 from IDO 2007. May have replacement - TBD id for 'local quality of infection'-IDO:0000102 replaced by http://purl.obolibrary.org/obo/IDO_0000475 (ID collision) _obsolete_epidemiological spread of disease _obsolete_local quality of infection 'systemic quality of infection'-IDO:0000103: A quality that inheres in an infection by virtue of the fact that the organisms comprising the infection are distributed throughout the host, including multiple host organs and/or systems (e.g. circulatory system). id 'outbreak'-ID[O]:0000103 from IDO 2007. May have replacement - TBD id for 'systemic quality of infection'-IDO:0000103 replaced by http://purl.obolibrary.org/obo/IDO_0000474 (ID collision) _obsolete_outbreak _obsolete_systemic quality of infection 'focal quality of infection'-IDO:0000104: A quality that inheres in an infection by virtue of the fact that the infection is local but symptoms are observed in distance parts of the host's body. Focal infections result from the dissemination of toxic products of the organisms comprising the infection. id 'infection'-ID[O]:0000104 from IDO 2007. May have replacement - TBD id for 'focal quality of infection'-IDO:0000104 replaced by http://purl.obolibrary.org/obo/IDO_0000476 (ID collision) _obsolete_focal quality of infection _obsolete_infection 'primary infection role'-IDO:0000105: A role borne by an infection by virtue of the fact that, at the time the process of establishing the infection begins, there is no other infection in the organism. id 'infection treatment process'-ID[O]:0000105 from IDO 2007. May have replacement - TBD id for 'primary infection role'-IDO:0000105 replaced by http://purl.obolibrary.org/obo/IDO_0000434 (ID collision) _obsolete_infection treatment process _obsolete_primary infection role 'secondary infection role'-IDO:0000106: A role borne by an infection by virtue of the fact that 1) the infection is composed of infectious organisms of type X, and 2) at the time the process of establishing the infection begins, the host already has an infection composed of organisms that are not of type X. id 'immunization'-ID[O]:0000106 from IDO 2007. May have replacement - TBD id for 'secondary infection role'-IDO:0000106 replaced by http://purl.obolibrary.org/obo/IDO_0000435 (ID collision) _obsolete_immunization _obsolete_secondary infection role 'polymicrobial quality'-IDO:0000107: A quality that inheres in an infection by virtue of the fact that its component pathogenic organisms are of multiple different types. id 'prevention of infection'-ID[O]:0000107 from IDO 2007. May have replacement - TBD id for 'polymicrobial quality'-IDO:0000107 replaced by http://purl.obolibrary.org/obo/IDO_0000471 (ID collision) _obsolete_polymicrobial quality _obsolete_prevention of infection 'acute quality of an infection'-IDO:0000108: A quality that inheres in an infection by virtue of the fact that the infection is established rapidly (the infection process unfolds over a short period of time), the disease disposition is realized soon after the infection process begins, and progression through the disease course resulting from the infection is rapid. id 'transport by blood'-ID[O]:0000108 from IDO 2007. May have replacement - TBD id for 'acute quality of an infection'-IDO:0000108 replaced by http://purl.obolibrary.org/obo/IDO_0000477 (ID collision) _obsolete_acute quality of an infection _obsolete_transport by blood 'chronic quality of an infection'-IDO:0000109: A quality that inheres in an infection by virtue of the fact that the progression through the disease course resulting from the infection is slow. id 'transport by lymph'-ID[O]:0000109 from IDO 2007. May have replacement - TBD id for 'chronic quality of an infection'-IDO:0000109 replaced by http://purl.obolibrary.org/obo/IDO_0000478 (ID collision) _obsolete_chronic quality of an infection _obsolete_transport by lymph id 'modulation of inflammatory response'-ID[O]:0000110 from IDO 2007. May have replacement - TBD _obsolete_modulation of inflammatory response id 'antigenic variation'-ID[O]:0000111 from IDO 2007. May have replacement - TBD _obsolete_antigenic variation 'bacteremia'-IDO:0000112: An infection defined by the presence of bacteria in the blood. id 'resist phagocytosis in subepithelial space'-ID[O]:0000112 from IDO 2007. May have replacement - TBD id for 'bacteremia'-IDO:0000112 replaced by http://purl.obolibrary.org/obo/IDO_0000506 (ID collision) _obsolete_bacteremia _obsolete_resist phagocytosis in subepithelial space 'viremia'-IDO:0000113: An infection defined by the presence of virions in the blood. id 'serum resistance'-ID[O]:0000113 from IDO 2007. May have replacement - TBD id for 'viremia'-IDO:0000113 replaced by http://purl.obolibrary.org/obo/IDO_0000505 (ID collision) _obsolete_serum resistance _obsolete_viremia 'intracellular quality of infection'-IDO:0000114: A quality that inheres in an infection by virtue of the fact that the individual organisms of which the infection is composed persist intracellularly, inside host cells. id 'phase variation'-ID[O]:0000114 from IDO 2007. May have replacement - TBD id for 'intracellular quality of infection'-IDO:0000114 replaced by http://purl.obolibrary.org/obo/IDO_0000473 (ID collision) _obsolete_intracellular quality of infection _obsolete_phase variation 'extracellular quality of infection'-IDO:0000115: A quality that inheres in an infection by virtue of the fact that the individual organisms of which the infection is composed persist in the extracellular space of the host. id 'genetic diversification'-ID[O]:0000115 from IDO 2007. May have replacement - TBD id for 'extracellular quality of infection'-IDO:0000115 replaced by http://purl.obolibrary.org/obo/IDO_0000472 (ID collision) _obsolete_extracellular quality of infection _obsolete_genetic diversification 'septicemia'-IDO:0000116: A bacteremia in which the baceteria are replicating. id 'complement resistance'-ID[O]:0000116 from IDO 2007. May have replacement - TBD id for 'septicemia'-IDO:0000116 replaced by http://purl.obolibrary.org/obo/IDO_0000507 (ID collision) _obsolete_complement resistance _obsolete_septicemia 'infectious disease'-IDO:0000117: A disease (OGMS:0000031) that inheres in an organism, has as its physical basis an infectious disorder (or infection), and is realized in an infectious disease course. id 'epidemic spread of disease'-ID[O]:0000117 from IDO 2007. May have replacement - TBD id for 'infectious disease'-IDO:0000117 replaced by http://purl.obolibrary.org/obo/IDO_0000436 (ID collision) _obsolete_epidemic spread of disease _obsolete_infectious disease id 'pandemic spread of disease'-ID[O]:0000118 from IDO 2007. May have replacement - TBD _obsolete_pandemic spread of disease id 'vaccination'-ID[O]:0000119 from IDO 2007. May have replacement - TBD _obsolete_vaccination 'host of infectious agent role'-IDO:0000152: A host of parasite role borne by an organism of type X by virtue of the fact that 1) it is host to an organism of another type (Y) that has the infectious disposition relative to organisms of type X, and 2) a disease disposition for an infectious disease that can be caused by Y can be realized in X. The infectious organism bears the infectious agent role. The host of infectious agent role is realized in processes in which an infection is being established and maintained in the host, the same processes in which the infectious agent role is realized. id for 'host of infectious agent role'-IDO:0000152 replaced by http://purl.obolibrary.org/obo/IDO_0000414 (ID collision) _obsolete_host of infectious agent role 'carrier of infectious agent role'-IDO:0000153: A host of infectious agent role borne by an organism by virtue of the fact that it has no symptoms of the infectious disease caused by the infectious agent for which it is host. The role is realized during a subprocess of symbiosis in which no symptoms exist. id for 'carrier of infectious agent role'-IDO:0000153 replaced by http://purl.obolibrary.org/obo/IDO_0000416 (ID collision) _obsolete_carrier of infectious agent role 'chronic carrier of infectious agent'-IDO:0000154: carrier of infectious agent that has_quality chronic id for 'chronic carrier of infectious agent'-IDO:0000154 replaced by http://purl.obolibrary.org/obo/IDO_0000572 (ID collision) _obsolete_chronic carrier of infectious agent 'pathogen role'-IDO:0000155: A role borne by an organism (x) by virtue of the fact that it has the pathogenic disposition relative to organisms of type Y, and 2) x, one of its parts, or one of its products and an organism (y) of type Y have spatiotemporal locations which allow processes resulting in disease or death of y to occur. The role is realized in y's disease course. id for 'pathogen role'-IDO:0000155 replaced by http://purl.obolibrary.org/obo/IDO_0000405 (ID collision) _obsolete_pathogen role 'infectious agent role'-IDO:0000157: A parasite role borne by an organism (x) of type X that has the infectious disposition relative to an organism of type Y, by virtue of the fact that 1) x is participating in symbiosis (GO:0044403) with an organism of type Y, and 2) a disease disposition for an infectious disease that can be caused by X can be realized in Y. The infectious agent role is realized in the processes that result in establishment and maintenance of the infection, such as breach of the host epithelial barriers, replication in the host, and evasion of the host's immune system. id for 'infectious agent role'-IDO:0000157 replaced by http://purl.obolibrary.org/obo/IDO_0000404 (ID collision) _obsolete_infectious agent role 'zoonotic disposition'-IDO:0000159: A disposition inhering in an organism (x) of type X by virtue of the fact that 1) x has the infectious disposition relative to organisms of type Y, Y are not human, and Y have the capability to play the host of infectious agent role in symbiosis with X, 2) x has the infectious disposition relative to humans, and humans have the capability to play the host of infectious agent role in symbiosis with X, and 3) x can be transmitted directly from some Y to some human. The infectious disease caused by the infectious organism may be different in Y and in humans. id for 'zoonotic disposition'-IDO:0000159 replaced by http://purl.obolibrary.org/obo/IDO_0000453 (ID collision) _obsolete_zoonotic disposition 'transmissibility of infectious organism'-IDO:0000161: A quality inhering in an organism with the infectious disposition and that is the likelihood that the organism will undergo a transmission process (TRANS:0000000). id for 'transmissibility of infectious organism'-IDO:0000161 replaced by http://purl.obolibrary.org/obo/IDO_0000463 (ID collision) _obsolete_transmissibility of infectious organism 'virion'-IDO:0000164: An object that is a virus particle, an assembled virus. id for 'virion'-IDO:0000164 replaced by http://purl.obolibrary.org/obo/IDO_0000508 (ID collision) _obsolete_virion 'primary pathogen role'-IDO:0000165: A pathogen role borne by an organism by virtue of the fact that causes disease or death in organisms that have intact defenses against pathogens. id for 'primary pathogen role'-IDO:0000165 replaced by http://purl.obolibrary.org/obo/IDO_0000407 (ID collision) _obsolete_primary pathogen role 'reservoir of infectious organism role'-IDO:0000166: A role borne by a material entity by virtue of the fact that it is a habitat for an organism with the infectious disposition and in which the organism can persist and multiply and from which the infectious organism can be transmitted. The role is realized in the life and multiplication processes of the infectious organism and in the transmission process (TRANS:0000000). If the material entity bearing the reservoir role is an organism, then this organism also bears the host role. The organism may also bear the vector role. id for 'reservoir of infectious organism role'-IDO:0000166 replaced by http://purl.obolibrary.org/obo/IDO_0000424 (ID collision) _obsolete_reservoir of infectious organism role 'fomite role'-IDO:0000167: A vehicle of infectious organism role borne by a material entity by virtue of the fact that the entity is not alive. id for 'fomite role'-IDO:0000167 replaced by http://purl.obolibrary.org/obo/IDO_0000423 (ID collision) _obsolete_fomite role 'infectivity'-IDO:0000168: A quality inhering in an organism that has the infectious disposition relative to organisms of type Y and is the likelihood that organisms of type Y that are exposed to the infectious organism become infected. id for 'infectivity'-IDO:0000168 replaced by http://purl.obolibrary.org/obo/IDO_0000464 (ID collision) _obsolete_infectivity 'pathogenicity of infectious organism'-IDO:0000169: A quality inhering in an organism that has the infectious disposition and is the degree to which infections from the organism lead to realization of the disease caused by the organism. id for 'pathogenicity of infectious organism'-IDO:0000169 replaced by http://purl.obolibrary.org/obo/IDO_0000465 (ID collision) _obsolete_pathogenicity of infectious organism 'virulence'-IDO:0000170: A quality inhering in an organism that has the pathogenic disposition and is the degree to which realizations of the disease caused by the organism become severe or fatal. id for 'virulence'-IDO:0000170 replaced by http://purl.obolibrary.org/obo/IDO_0000466 (ID collision) _obsolete_virulence 'vector of infectious organism role'-IDO:0000172: A transporter of infectious organism role borne by an organism (x) by virtue of the fact that 1) it is active in the transmission of an infectious organism (y) to a host organism (z) while carrying out a process that is part of its normal life history (e.g. moving from place to place), 2) y has the infectious disposition relative to organisms of type Z, 3) x is not an organism of type Z, 4) z is an organism of type Z, 5) and x does not itself cause an infectious disease caused by Y in Z. The role is realized in the transmission process (TRANS:0000000). id for 'vector of infectious organism role'-IDO:0000172 replaced by http://purl.obolibrary.org/obo/IDO_0000418 (ID collision) _obsolete_vector of infectious organism role 'contagious quality'-IDO:0000174: A quality inhering in a bearer of the host of infectious agent role by virtue of the fact that the host's infectious disease is at a stage during which the infectious organism causing the disease is easily transmitted from one host to another. 'Easily' refers to the fact that transimission is likely as a result of pathological processes, like coughing and sneezing, that are a manifestation of the disease during a particular stage. id for 'contagious quality'-IDO:0000174 replaced by http://purl.obolibrary.org/obo/IDO_0000458 (ID collision) _obsolete_contagious quality 'drug resistance'-IDO:0000175: A protective resistance that inheres in a material entity, is realized when the entity is exposed to a drug, and protects the entity from damaging effects of the drug by interfering with the realization of the drug's function. id for 'drug resistance'-IDO:0000175 replaced by http://purl.obolibrary.org/obo/IDO_0000445 (ID collision) _obsolete_drug resistance 'co-infected quality'-IDO:0000178: A quality inhering in an organism by virtue of the fact that the organism is the bearer of the host of infectious parasite role in a symbiosis process (GO:0044403) with organisms of at least two different types that have the infectious disposition and that have established an infection in the host. id for 'co-infected quality'-IDO:0000178 replaced by http://purl.obolibrary.org/obo/IDO_0000461 (ID collision) _obsolete_co-infected quality 'infected quality of host'-IDO:0000180: A quality inhering in an organism by virtue of the fact that the organism is the bearer of the host of infectious parasite role in a symbiosis process (GO:0044403) with an organism that has the infectious disposition and that has established an infection in the host. id for 'infected quality of host'-IDO:0000180 replaced by http://purl.obolibrary.org/obo/IDO_0000460 (ID collision) _obsolete_infected quality of host 'immunity to infectious organism'-IDO:0000184: A protective resistance that inheres in an organism (x) of type X by virtue of the fact that 1) in symbiosis between an organism of type X and an organism of type Y, X have the capability to play the host of infectious agent role, and Y have the capability to play the infectious agent role, 2) organisms of type X have an immune system, and 3) x has immune system components that can participate in processes of the type immune response (GO:0006955) that lead to protection of x from the damaging effects of infectious organisms of type Y. id for 'immunity to infectious organism'-IDO:0000184 replaced by http://purl.obolibrary.org/obo/IDO_0000448 (ID collision) _obsolete_immunity to infectious organism id 'mode of transmission'-ID[O]:0000200 from IDO 2007. May have replacement - TBD _obsolete_mode of transmission id 'end reservoir'-ID[O]:0000201 from IDO 2007. May have replacement - TBD _obsolete_end reservoir 'Role played by portion of physical substance in a biological process'-ID[O]:0000204: Role played by portion of physical substance in a biological process id 'factor'-ID[O]:0000204 from IDO 2007. May have replacement - TBD _obsolete_factor 'the process by which a biotic entity establishes multiple copies of itself in a new environment (including an organismal environment).nnfix idn'native' environment term'-ID[O]:0000205: the process by which a biotic entity establishes multiple copies of itself in a new environment (including an organismal environment).nnfix idn'native' environment term id 'colonization'-ID[O]:0000205 from IDO 2007. May have replacement - TBD _obsolete_colonization id 'biotic'-ID[O]:0000206 from IDO 2007. May have replacement - TBD _obsolete_biotic id 'adhesin'-ID[O]:0000207 from IDO 2007. May have replacement - TBD _obsolete_adhesin 'prevalence as measured by antibody'-ID[O]:0000208: prevalence as measured by antibody id 'seroprevalence'-ID[O]:0000208 from IDO 2007. May have replacement - TBD _obsolete_seroprevalence 'quality [state] of an organism that during its life cycle in which its growth. development, metabolism, etc is temporarily suspended nnnsuspended state, non-replicative state, resting state'-ID[O]:0000209: quality [state] of an organism that during its life cycle in which its growth. development, metabolism, etc is temporarily suspended nnnsuspended state, non-replicative state, resting state id 'dormancy'-ID[O]:0000209 from IDO 2007. May have replacement - TBD _obsolete_dormancy id 'quality of host'-ID[O]:0000210 from IDO 2007. May have replacement - TBD _obsolete_quality of host id 'quality of pathogen'-ID[O]:0000211 from IDO 2007. May have replacement - TBD _obsolete_quality of pathogen 'can change depending on environmentnnwhere should susceptibility factors go?'-ID[O]:0000212: can change depending on environmentnnwhere should susceptibility factors go? id 'susceptibility'-ID[O]:0000212 from IDO 2007. May have replacement - TBD _obsolete_susceptibility id 'resistance'-ID[O]:0000213 from IDO 2007. May have replacement - TBD _obsolete_resistance id 'refractoriness'-ID[O]:0000214 from IDO 2007. May have replacement - TBD _obsolete_refractoriness id 'quality of host population'-ID[O]:0000215 from IDO 2007. May have replacement - TBD _obsolete_quality of host population id 'herd immunity'-ID[O]:0000216 from IDO 2007. May have replacement - TBD _obsolete_herd immunity id 'quality of infectious disease'-ID[O]:0000217 from IDO 2007. May have replacement - TBD _obsolete_quality of infectious disease id 'case of infectious disease'-ID[O]:0000218 from IDO 2007. May have replacement - TBD _obsolete_case of infectious disease 'agent is incubated?ndisease is incubated?'-ID[O]:0000219: agent is incubated?ndisease is incubated? id 'incubation period'-ID[O]:0000219 from IDO 2007. May have replacement - TBD _obsolete_incubation period id 'infectivity period'-ID[O]:0000220 from IDO 2007. May have replacement - TBD _obsolete_infectivity period 'the unfolding or course of infectious diseasennwhat do we say about infectious disease that always remain latent nwhat about when a pathogen continues its progression nnwe need to think about whether we need a term called stagenlife cycle?nprogression?ndevelopment?'-ID[O]:0000221: the unfolding or course of infectious diseasennwhat do we say about infectious disease that always remain latent nwhat about when a pathogen continues its progression nnwe need to think about whether we need a term called stagenlife cycle?nprogression?ndevelopment? id 'infectious disease progression'-ID[O]:0000221 from IDO 2007. May have replacement - TBD _obsolete_infectious disease progression id 'infectious disease course'-ID[O]:0000222 from IDO 2007. May have replacement - TBD _obsolete_infectious disease course id 'host recovery period'-ID[O]:0000223 from IDO 2007. May have replacement - TBD _obsolete_host recovery period id 'intrinsic incubation period'-ID[O]:0000224 from IDO 2007. May have replacement - TBD _obsolete_intrinsic incubation period id 'extrinsic incubation period'-ID[O]:0000225 from IDO 2007. May have replacement - TBD _obsolete_extrinsic incubation period 'is this just the part of the life cycle of the biotic entity that has role pathogen for the period of time while it has role pathogen?nncan include phases in the existence of the entity before it becomes a pathogen'-ID[O]:0000226: is this just the part of the life cycle of the biotic entity that has role pathogen for the period of time while it has role pathogen?nncan include phases in the existence of the entity before it becomes a pathogen id 'pathogen life cycle'-ID[O]:0000226 from IDO 2007. May have replacement - TBD _obsolete_pathogen life cycle 'is a period a process?'-ID[O]:0000227: is a period a process? id 'dormancy period'-ID[O]:0000227 from IDO 2007. May have replacement - TBD _obsolete_dormancy period id 'pathogen outbreak'-ID[O]:0000228 from IDO 2007. May have replacement - TBD _obsolete_pathogen outbreak id 'oral-fecal transmission'-ID[O]:0000229 from IDO 2007. May have replacement - TBD _obsolete_oral-fecal transmission id 'vertical transmission'-ID[O]:0000230 from IDO 2007. May have replacement - TBD _obsolete_vertical transmission id 'horizontal transmission'-ID[O]:0000231 from IDO 2007. May have replacement - TBD _obsolete_horizontal transmission id 'pathogen life cycle stage'-ID[O]:0000232 from IDO 2007. May have replacement - TBD _obsolete_pathogen life cycle stage id 'infectious disease progression stage'-ID[O]:0000233 from IDO 2007. May have replacement - TBD _obsolete_infectious disease progression stage id 'progression rate'-ID[O]:0000300 from IDO 2007. May have replacement - TBD _obsolete_progression rate id 'rapid progression'-ID[O]:0000301 from IDO 2007. May have replacement - TBD _obsolete_rapid progression id 'long-term non-progression'-ID[O]:0000302 from IDO 2007. May have replacement - TBD _obsolete_long-term non-progression id 'highly exposed persistently seronegative'-ID[O]:0000303 from IDO 2007. May have replacement - TBD _obsolete_highly exposed persistently seronegative id '<new term>'-ID[O]:0000304 from IDO 2007. May have replacement - TBD _obsolete_<new term> id 'co-infected'-ID[O]:0000305 from IDO 2007. May have replacement - TBD _obsolete_co-infected 'is a quality relating to both bacteria and host'-ID[O]:0000306: is a quality relating to both bacteria and host id 'fitness'-ID[O]:0000306 from IDO 2007. May have replacement - TBD _obsolete_fitness A role borne by an organism by virtue of the fact that it is participating in the process of symbiosis (GO:0044403). The role is realized in the process of symbiosis. Albert Goldfain Alexander Diehl Lindsay Cowell symbiont role A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) from which both symbionts derive a growth, survival, or fitness advantage. The role is realized in the processes that result in the growth, survival, or fitness advantage of either organism. Albert Goldfain Alexander Diehl Lindsay Cowell mutualist role A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with an organism from which it can derive a growth, survival, or fitness advantage, but the other organism is neither advantaged nor disadvantaged by the symbiosis. The role is realized in the processes that result in the commensal's growth, survival, or fitness advantage. Albert Goldfain Alexander Diehl Lindsay Cowell commensal role A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with an organism from which it can derive a growth, survival, or fitness advantage while that organism's growth, survival, or fitness is reduced. The role is realized in the processes that result in the parasite's growth, survival, or fitness advantage or in the other organism's growth, survival, or fitness reduction. Albert Goldfain Alexander Diehl Lindsay Cowell parasite role A parasite role borne by an organism (x) of type X that has the infectious disposition relative to an organism of type Y, by virtue of the fact that 1) x is participating in symbiosis (GO:0044403) with an organism of type Y, and 2) a disease disposition for an infectious disease that can be caused by X can be realized in Y. The infectious agent role is realized in the processes that result in establishment and maintenance of the infection, such as breach of the host epithelial barriers, replication in the host, and evasion of the host's immune system. Albert Goldfain Alexander Diehl Lindsay Cowell infectious agent role A role borne by an organism (x) by virtue of the fact that it has the pathogenic disposition relative to organisms of type Y, and 2) x, one of its parts, or one of its products and an organism (y) of type Y have spatiotemporal locations which allow processes resulting in disease or death of y to occur. The role is realized in y's disease course. Albert Goldfain Alexander Diehl Lindsay Cowell pathogen role A pathogen role borne by an organism by virtue of the fact that it causes disease or death only in organisms whose defenses against pathogens are compromised. This includes individuals who are immunocompromised or who have damaged barriers that normally protect against infection (e.g. skin). Albert Goldfain Alexander Diehl Lindsay Cowell opportunistic pathogen role A pathogen role borne by an organism by virtue of the fact that causes disease or death in organisms that have intact defenses against pathogens. Albert Goldfain Alexander Diehl Lindsay Cowell primary pathogen role A symbiont role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403), it is the larger of the organisms participating in the symbiosis, and it provides an environment or nutrient resources in or on itself for the survival of its partner in symbiosis. The role is realized in the processes in which the host makes the relevant resources available to its partner in symbiosis. Albert Goldfain Alexander Diehl Lindsay Cowell host role A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that, while in the host, reaches developmental maturity and reproduces sexually, if it is a sexually reproducing organism. The role is realized in the developmental and reproduction processes of the host's partner in symbiosis. Albert Goldfain Alexander Diehl Lindsay Cowell definitve host role A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that utilizes the host to undergo a developmental stage transition, and the host is required for continuation of the partner's life cycle. The role is realized in the developmental processes of the host's partner in symbiosis. Albert Goldfain Alexander Diehl Lindsay Cowell intermediate host role A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that utilizes the host to undergo a developmental stage transition, but the host is not required for continuation of the partner's life cycle. The role is realized in the developmental processes of the host's partner in symbiosis. Albert Goldfain Alexander Diehl Lindsay Cowell paratenic host role A host role borne by an organism by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with a partner that has the infectious disposition but the host cannot transmit (TRANS:0000000) the partner to its definitive host. The role is realized during the entire process of symbiosis. Albert Goldfain Alexander Diehl Lindsay Cowell dead-end host role A host role borne by an organism by virtue of the fact that it is participating in a symbiosis process (GO:0044403) with an organism which derives from the host a growth, survival, or fitness advantage while the host's growth, survival, or fitness is reduced. The partner in symbiosis is playing the parasite role. The role is realized in the processes that result in the parasite's growth, survival, or fitness advantage or in the host's growth, survival, or fitness reduction. Albert Goldfain Alexander Diehl Lindsay Cowell host of parasite role A host of parasite role borne by an organism of type X by virtue of the fact that 1) it is host to an organism of another type (Y) that has the infectious disposition relative to organisms of type X, and 2) a disease disposition for an infectious disease that can be caused by Y can be realized in X. The infectious organism bears the infectious agent role. The host of infectious agent role is realized in processes in which an infection is being established and maintained in the host, the same processes in which the infectious agent role is realized. Albert Goldfain Alexander Diehl Lindsay Cowell host of infectious agent role A host role borne by an organism (x) by virtue of the fact that it is participating in a process of symbiosis (GO:0044403) with an organism (y) that has the pathogenic disposition to organisms of type Z; x may be of type Z or another type. In the symbiosis process, y is bearer of the pathogen role. The role is realized in the processes that result in disease or death of an organism of type Z. Albert Goldfain Alexander Diehl Lindsay Cowell host of pathogen role A host of infectious agent role borne by an organism by virtue of the fact that it has no symptoms of the infectious disease caused by the infectious agent for which it is host. The role is realized during a subprocess of symbiosis in which no symptoms exist. Albert Goldfain Alexander Diehl Lindsay Cowell carrier of infectious agent role A role borne by a material entity by virtue of the fact that the entity has (1) a part which is the location of an organism that has the infectious disposition and (2) the capability to transfer (either actively or passively) the infectious organism from one location to another. The role is realized in processes that transfer the infectious organism from one location to another. Albert Goldfain Alexander Diehl Lindsay Cowell transporter of infectious organism role A transporter of infectious organism role borne by an organism (x) by virtue of the fact that 1) it is active in the transmission of an infectious organism (y) to a host organism (z) while carrying out a process that is part of its normal life history (e.g. moving from place to place), 2) y has the infectious disposition relative to organisms of type Z, 3) x is not an organism of type Z, 4) z is an organism of type Z, 5) and x does not itself cause an infectious disease caused by Y in Z. The role is realized in the transmission process (TRANS:0000000). Albert Goldfain Alexander Diehl Lindsay Cowell vector of infectious organism role A vector of infectious organism role borne by an organism by virtue of the fact that the infectious organism does not multiply in or on the vector. Albert Goldfain Alexander Diehl Lindsay Cowell mechanical vector of infectious organism role A vector of infectious organism role borne by an organism by virtue of the fact that the infectious organism multiplies in or on the vector. Albert Goldfain Alexander Diehl Lindsay Cowell biological vector of infectious organism role A transporter of infectious organism role borne by a material entity by virtue of the fact that the entitiy is either not alive or is not a complete organism. Albert Goldfain Alexander Diehl Lindsay Cowell vehicle of infectious organism role A vehicle of infectious organism role borne by a material entity by virtue of the fact that the entity is living or contains living cells other than those that have the infectious disposition. Examples include blood, serum, tissue, or fresh produce. Albert Goldfain Alexander Diehl Lindsay Cowell biological vehicle of infectious organism role A vehicle of infectious organism role borne by a material entity by virtue of the fact that the entity is not alive. Albert Goldfain Alexander Diehl Lindsay Cowell fomite role A role borne by a material entity by virtue of the fact that it is a habitat for an organism with the infectious disposition and in which the organism can persist and multiply and from which the infectious organism can be transmitted. The role is realized in the life and multiplication processes of the infectious organism and in the transmission process (TRANS:0000000). If the material entity bearing the reservoir role is an organism, then this organism also bears the host role. The organism may also bear the vector role. Albert Goldfain Alexander Diehl Lindsay Cowell reservoir of infectious organism role A role borne by a protein or macromolecular complex by virtue of the fact that it 1) is produced by an organism (x) that has the pathogenic disposition to organisms of type Y and 2) has the capability to participate in a process that improves survival of x in an organism of type Y, improves transmission (TRANS:0000000) of x, and/or causes disease in organisms of type Y. The role is realized in the those processes. Albert Goldfain Alexander Diehl Lindsay Cowell virulence factor role A virulence factor role borne by a protein or macromolecular complex by virtue of the fact that it causes I) malfunction of cells, ii) damage to extracellular matrix, or iii) damage of cells to a degree that can result in cell death. The role is realized in a process that is part of the disease course for a disease caused by the pathogen. Albert Goldfain Alexander Diehl Lindsay Cowell toxin of pathogen role A toxin of pathogen role borne by a protein or macromolecular complex by virtue of the fact that it is secreted by a pathogenic organism and damages cells or extracellular matrix by a direct enzymatic process. Albert Goldfain Alexander Diehl Lindsay Cowell exotoxin role A exotoxin role borne by a protein or macromolecular complex by virtue of the fact that it is secreted by a pathogenic organism during symbiosis into the host intestine and damages cells of the host intestinal mucosa. Albert Goldfain Alexander Diehl Lindsay Cowell enterotoxin role A toxin of pathogen role borne by a protein or protein complex by virtue of the fact that it is released from a cell that is a pathogenic organism only upon cytolysis. Albert Goldfain Alexander Diehl Lindsay Cowell endotoxin role A role borne by an anatomical entity (FMA ID) by virtue of the fact that 1) the anatomical entity is part of an organism (x) of type X, 2) x is participating in a process of establishing an infection in x, and 3) the anatomical entity serves as the site through which infectious organism enters x. The role is realized in the process by which the infectious organism enters x. Albert Goldfain Alexander Diehl Lindsay Cowell portal of entry of infectious organism role A role borne by an anatomical entity (FMA ID) by virtue of the fact that 1) the anatomical entity is part of an organism (x) of type X, 2) x is participating in a process of transmitting x, and 3) the anatomical entity serves as the site through which infectious organism exits x. The role is realized in the process by which the infectious organism exits x. Albert Goldfain Alexander Diehl Lindsay Cowell portal of exit of infectious organism role A role borne by a material entity that has the antimicrobial disposition by virtue of the fact it is in contact with a non-living object. The role is realized in the killing and/or growth inhibition of microorganisms on the non-living object. Albert Goldfain Alexander Diehl Lindsay Cowell disinfectant role A role borne by a material entity that has the antimicrobial disposition by virtue of the fact that it is in contact with an anatomical entity of a living organism. The role is realized in the killing and/or growth inhibition of microorganisms on the anatomical entity. Albert Goldfain Alexander Diehl Lindsay Cowell antiseptic role A role borne by an infection by virtue of the fact that, at the time the process of establishing the infection begins, there is no other infection in the organism. Albert Goldfain Alexander Diehl Lindsay Cowell primary infection role A role borne by an infection by virtue of the fact that 1) the infection is composed of infectious organisms of type X, and 2) at the time the process of establishing the infection begins, the host already has an infection composed of organisms that are not of type X. Albert Goldfain Alexander Diehl Lindsay Cowell secondary infection role A disease (OGMS:0000031) that inheres in an organism, has as its physical basis an infectious disorder (or infection), and is realized in an infectious disease course. Albert Goldfain Alexander Diehl Lindsay Cowell infectious disease A disposition inhering in a protein or macromolecular complex by virtue of the fact that it has the capability to bind (GO:0005488) to a part of a host organism during symbiosis (GO:0044403) resulting in adherence of the organism producing the protein or complex to host cell surfaces or extracellular matrix (GO BP adherence to host GO:0044406). The disposition is realized in the adherence to host process. Albert Goldfain Alexander Diehl Lindsay Cowell adhesion factor disposition A disposition inhering in a protein or macromolecular complex by virtue of the fact that 1) it has the capability to participate in processes that facilitate the breach of host epithelial barriers or entry into and survival in host cells, and 2) the processes would not occur without such a particular protein or macromolecular complex as a participant. The disposition is realized in these processes. Albert Goldfain Alexander Diehl Lindsay Cowell invasion factor disposition A disposition that inheres in a material entity by virtue of the fact that the entity can kill or inhibit the growth of microorganisms. The disposition is realized in the killing and growth inhibiting processes. The disposition could be a function or a capability. Albert Goldfain Alexander Diehl Lindsay Cowell antimicrobial disposition An antimicrobial disposition that, when realized, results in the death or inhibited growth of viruses. Albert Goldfain Alexander Diehl Lindsay Cowell antiviral disposition An antimicrobial disposition that, when realized, results in the death or inhibited growth of fungal organisms. Albert Goldfain Alexander Diehl Lindsay Cowell antifungal disposition An antimicrobial disposition that, when realized, results in the death or inhibited growth of bacteria. Albert Goldfain Alexander Diehl Lindsay Cowell antibacterial disposition antibiotic disposition A disposition that inheres in a material entity by virtue of the fact that the entity can kill or inhibit the growth of eukaryotic parasites. Albert Goldfain Alexander Diehl Lindsay Cowell antiparasitic disposition A disposition that inheres in a material entity (x) by virtue of the fact that the entity has a part (e.g. a gene product), which itself has a disposition 1) to ensure a physiologic response of a certain degree to an entity with the capability to damage x, or 2) to prevent the completion of some process caused by an entity with the capabiity to damage x. The realization of the disposition protects x from or mitigates the damaging effects of the entity with the capability to damage x. The protective resistance disposition is manifested during a biological process. Albert Goldfain Alexander Diehl Lindsay Cowell protective resistance A protective resistance that inheres in a material entity, is realized when the entity is exposed to a drug, and protects the entity from damaging effects of the drug by interfering with the realization of the drug's function. Albert Goldfain Alexander Diehl Lindsay Cowell drug resistance A protective resistance that inheres in an organism (x) of type X by virtue of the fact that 1) in symbiosis between an organism of type X and an organism of type Y, X have the capability to play the host of infectious agent role, and Y have the capability to play the infectious agent role, and 2) x has a part with a disposition, the realization of which prevents an essential subprocess of the processes of establishing or maintaining infection or protects the host from damaging effects of the infection. The prevention or protection is not of type immune system process (GO:0002376). Albert Goldfain Alexander Diehl Lindsay Cowell host resistance to infectious organism A protective resistance that inheres in a population of organisms by virtue of the fact that a sufficient number of members of the population have immunity to an infectious organism thereby reducing transmission (TRANS:0000000) and protecting non-immune members from the infectious organism population. The population in which an instance of herd immunity inheres is composed of members that are organisms of the same type, X, have the capability to play the host of infectious agent role in symbiosis with an organism that has the infectious disposition relative to X, and are frequent participants in processes that would transmit the infectious organism between members of the population. Albert Goldfain Alexander Diehl Lindsay Cowell herd immunity to infectious organism A protective resistance that inheres in an organism (x) of type X by virtue of the fact that 1) in symbiosis between an organism of type X and an organism of type Y, X have the capability to play the host of infectious agent role, and Y have the capability to play the infectious agent role, 2) organisms of type X have an immune system, and 3) x has immune system components that can participate in processes of the type immune response (GO:0006955) that lead to protection of x from the damaging effects of infectious organisms of type Y. Albert Goldfain Alexander Diehl Lindsay Cowell protective immunity to infectious organism immunity to infectious organism An immunity to infectious organism that prevents the infectious organism from establishing an infection or results in elimination of the infectious organism from the host organism. Albert Goldfain Alexander Diehl Lindsay Cowell sterilizing immunity to infectious organism A disposition inhering in an organism (x) relative to an organism of a different type (Y) by virtue of the fact that organism x has the capability to cause disease or death, either directly or indirectly, in organisms of type Y. Albert Goldfain Alexander Diehl Lindsay Cowell pathogenic disposition of x relative to Y A disposition inhering in an organism (x) by virtue of the fact that it has the infectious disposition relative to organisms of type Y, and during symbiosis (GO:0044403), the x can initiate processes, the result of which is penetration of the epithelial barriers of some Y. Albert Goldfain Alexander Diehl Lindsay Cowell invasive disposition A pathogenic disposition inhering in an organism (x) relative to an organism of a different type (Y) by virtue of the fact that x has the capability 1) to be transmitted, either directly or indirectly, to organisms of type Y, 2) to persist and multiply in any organism of type Y, and 2) to establish an infection in any organism of type Y. The disposition is realized in the process of establishing an infection. Albert Goldfain Alexander Diehl Lindsay Cowell infectious disposition of x relative to Y A disposition inhering in an organism (x) of type X by virtue of the fact that 1) x has the infectious disposition relative to organisms of type Y, Y are not human, and Y have the capability to play the host of infectious agent role in symbiosis with X, 2) x has the infectious disposition relative to humans, and humans have the capability to play the host of infectious agent role in symbiosis with X, and 3) x can be transmitted directly from some Y to some human. The infectious disease caused by the infectious organism may be different in Y and in humans. Albert Goldfain Alexander Diehl Lindsay Cowell zoonotic disposition A disposition inhering in an organism (x) of type X by virtue of the fact that 1) x has the infectious disposition relative to organisms of type Y, Y are not human, and Y have the capability to play the host of infectious agent role in symbiosis with X, 2) x has the infectious disposition relative to humans, and humans have the capability to play the host of infectious agent role in symbiosis with X, and 3) x can be transmitted directly from some human to some Y. The infectious disease caused by the infectious organism may be different in Y and in humans. Albert Goldfain Alexander Diehl Lindsay Cowell reverse zoonotic disposition a capability inhering in a population in virtue of the individual capabilities of the members of that population. Albert Goldfain Alexander Diehl Lindsay Cowell collective capability A quality that inheres in an organism with an immune system by virtue of the fact that the organism's immunocompetence is reduced as a result of substances, such as drugs, or infections that interfere with one or more immune system processes (GO:0002376). Albert Goldfain Alexander Diehl Lindsay Cowell immunosuppressed A quality that inheres in an organism with an immune system and is the degree to which the organism's immune system is capable of mounting an adequate immune response (GO:0006955). Albert Goldfain Alexander Diehl Lindsay Cowell immunocompetence A quality inhering in a bearer of the host of infectious agent role by virtue of the fact that the host's infectious disease is at a stage during which the infectious organism causing the disease is easily transmitted from one host to another. 'Easily' refers to the fact that transimission is likely as a result of pathological processes, like coughing and sneezing, that are a manifestation of the disease during a particular stage. Albert Goldfain Alexander Diehl Lindsay Cowell contagious quality A quality inhering in an organism by virtue of the fact that the organism is the bearer of the host role in a symbiosis process (GO:0044403). Albert Goldfain Alexander Diehl Lindsay Cowell colonized quality of host A quality inhering in an organism by virtue of the fact that the organism is the bearer of the host of infectious parasite role in a symbiosis process (GO:0044403) with an organism that has the infectious disposition and that has established an infection in the host. Albert Goldfain Alexander Diehl Lindsay Cowell infected quality of host A quality inhering in an organism by virtue of the fact that the organism is the bearer of the host of infectious parasite role in a symbiosis process (GO:0044403) with organisms of at least two different types that have the infectious disposition and that have established an infection in the host. Albert Goldfain Alexander Diehl Lindsay Cowell co-infected quality A quality inhering in an organism by virtue of the fact that the organism has a disorder, the conferred disease disposition is realized, and the organism has symptoms of the disease. Albert Goldfain Alexander Diehl Lindsay Cowell symptomatic quality A quality inhering in an organism with the infectious disposition and that is the likelihood that the organism will undergo a transmission process (TRANS:0000000). Albert Goldfain Alexander Diehl Lindsay Cowell communicability infectiousness transmissibility of infectious organism A quality inhering in an organism that has the infectious disposition relative to organisms of type Y and is the likelihood that organisms of type Y that are exposed to the infectious organism become infected. Albert Goldfain Alexander Diehl Lindsay Cowell infectivity A quality inhering in an organism that has the infectious disposition and is the degree to which infections from the organism lead to realization of the disease caused by the organism. Albert Goldfain Alexander Diehl Lindsay Cowell pathogenicity of infectious organism A quality inhering in an organism that has the pathogenic disposition and is the degree to which realizations of the disease caused by the organism become severe or fatal. Albert Goldfain Alexander Diehl Lindsay Cowell virulence A quality inhering in a material entity (x) that is the degree to which another material entity can harm x. Albert Goldfain Alexander Diehl Lindsay Cowell susceptibility A susceptibility that inheres in an organism (x) of type X relative to an organism of type Y 1) by virtue of the fact that Y have the infectious disposition relative to X, and X have the capability to bear the host of infectious agent role in symbiosis with some Y, and is 2) the likelihood that x will participate in a symbiosis process (GO:0044403) with some Y in which it plays the host of infectious agent role, or 3) the degree to which x can be harmed by participation in the symbiosis process or by pathoglocial processes that are the realization of an infectious disease caused by Y. Albert Goldfain Alexander Diehl Lindsay Cowell susceptibility to infectious organism A susceptibility that inheres in a material entity that is alive and is the degree to which the entity can be harmed or inhibited from surviving by a drug of a certain type. Albert Goldfain Alexander Diehl Lindsay Cowell drug susceptibility A drug susceptibility that inheres in an infectious organism and is the degree to which the organism can be harmed or inhibited from surviving by a drug of a certain type. Albert Goldfain Alexander Diehl Lindsay Cowell drug susceptibility of infectious organism A quality that inheres in an infection by virtue of the fact that its component pathogenic organisms are of multiple different types. Albert Goldfain Alexander Diehl Lindsay Cowell polymicrobial quality A quality that inheres in an infection by virtue of the fact that the individual organisms of which the infection is composed persist in the extracellular space of the host. Albert Goldfain Alexander Diehl Lindsay Cowell extracellular quality of infection A quality that inheres in an infection by virtue of the fact that the individual organisms of which the infection is composed persist intracellularly, inside host cells. Albert Goldfain Alexander Diehl Lindsay Cowell intracellular quality of infection A quality that inheres in an infection by virtue of the fact that the organisms comprising the infection are distributed throughout the host, including multiple host organs and/or systems (e.g. circulatory system). Albert Goldfain Alexander Diehl Lindsay Cowell systemic quality of infection A quality that inheres in an infection by virtue of the fact that the organisms comprising the infection are limited to a relatively small area of the host's body. Albert Goldfain Alexander Diehl Lindsay Cowell local quality of infection A quality that inheres in an infection by virtue of the fact that the infection is local but symptoms are observed in distance parts of the host's body. Focal infections result from the dissemination of toxic products of the organisms comprising the infection. Albert Goldfain Alexander Diehl Lindsay Cowell focal quality of infection A quality that inheres in an infection by virtue of the fact that the infection is established rapidly (the infection process unfolds over a short period of time), the disease disposition is realized soon after the infection process begins, and progression through the disease course resulting from the infection is rapid. Albert Goldfain Alexander Diehl Lindsay Cowell acute quality of an infection A quality that inheres in an infection by virtue of the fact that the progression through the disease course resulting from the infection is slow. Albert Goldfain Alexander Diehl Lindsay Cowell chronic quality of an infection A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the number of realizations of the infectious disease for which the infectious disease course (the realization of the disease) begins during a specified period of time. Incidence is used as a measure of risk. Albert Goldfain Alexander Diehl Lindsay Cowell incidence of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role for organisms of type X and 2) is the number of organisms in the population that begin bearing the host role for the infectious organism during a specified period of time. Incidence is used as a measure of risk. Albert Goldfain Alexander Diehl Lindsay Cowell incidence of infection X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the incidence of infectious disease X divided by the number of members of the population in which the infectious disease course had not begun at the beginning of the specified period of time. Albert Goldfain Alexander Diehl Lindsay Cowell cumulative incidence of infectious disease incidence proportion of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role for organisms of type X and 2) is the incidence of infection X divided by the number of members of the population that are not infected at the beginning of the specified period of time. Albert Goldfain Alexander Diehl Lindsay Cowell cumulative incidence of infection incidence proportion of infection X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the incidence proportion if infectious disease X divided by the period of time over which the incidence was measured. Albert Goldfain Alexander Diehl Lindsay Cowell incidence rate of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role for organisms of type X and 2) is the incidence proportion of infection X divided by the period of time over which the incidence was measured. Albert Goldfain Alexander Diehl Lindsay Cowell incidence rate of infection X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the number of realizations of infectious disease X that exist at a specified time. Albert Goldfain Alexander Diehl Lindsay Cowell prevalence of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role for organisms of type X and 2) is the number of organisms in the population that bear the host of infectious agent role for the infectious organism at a specified time. Albert Goldfain Alexander Diehl Lindsay Cowell prevalence of infection X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the number of organisms in the population who have, at any point during their lives, been bearers of infectious disease X and experienced realization of the disease. Albert Goldfain Alexander Diehl Lindsay Cowell lifetime prevalence of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role for organisms of type X and 2) is the number of organisms in the population that have antibody specific for the infectious organism in their serum at a specified time. Albert Goldfain Alexander Diehl Lindsay Cowell seroprevalence of infection X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) is the proportion of deaths in the population resulting from the disease over a specified period of time. Albert Goldfain Alexander Diehl Lindsay Cowell mortality rate of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X, 2) by virtue of the fact that infections of the organism type that causes infectious disease X are maintained in the population without the need for transmission into the population from hosts that are not members of the population. Infectious diseases that are typical or common to a particular population are referred to as endemic. Albert Goldfain Alexander Diehl Lindsay Cowell endemicity endemic quality of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) that is the prevalence of infectious disease X that is typical for the specified population. Albert Goldfain Alexander Diehl Lindsay Cowell endemic level of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X and 2) that is the incidence rate of infectious disease X that is typical for the specified population. Albert Goldfain Alexander Diehl Lindsay Cowell endemic rate of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X, 2) by virtue of the fact that the endemic level of infectious disease X is persistently high in the population. A hyper-endemic disease affects all age groups equally. Albert Goldfain Alexander Diehl Lindsay Cowell hyper-endemic quality of infectious disease X A quality that 1) inheres in a pre-speciified organism population whose members have the capability to play the host of infectious agent role in symbiosis with organisms of the type that cause infectious disease X, 2) by virtue of the fact that infections of the infectious organism that causes disease X occur in the population with a fluctuating prevalence. Albert Goldfain Alexander Diehl Lindsay Cowell sporadic quality of infectious disease X A disease course that is the total process of realization of the infectious disease (disposition), beginning with the manifestation of pathological processes caused by the infectious disorder and ending with 1) clearance of the infectious disorder, 2) long-term control of the infection by the host's immune response accompanied by the resolution of symptoms, or 3) death of the host. Albert Goldfain Alexander Diehl Lindsay Cowell infectious disease course An infectious disease course during which there is a long period in which the host of infectious agent in whom the disease disposition has been realized does not progress to a more severe form of disease. Albert Goldfain Alexander Diehl Lindsay Cowell long-term nonprogressing infectious disease course A process by which an organism acquires immunity to an infectious organism. Albert Goldfain Alexander Diehl Lindsay Cowell immunization against infectious organism An immunization process that begins with exposure of an organism to antigen and results in immunity against an infectious organism. Albert Goldfain Alexander Diehl Lindsay Cowell inoculation active immunization against infectious organism An active immunization process that begins with exposure of an organism to a vaccine. Albert Goldfain Alexander Diehl Lindsay Cowell vaccination An active immunization process in which smallpox is introduced in the form of a scab from a pustule into an organism to induce immunity against smallpox. Albert Goldfain Alexander Diehl Lindsay Cowell variolation An immunization process that begins with transfer to an organism of molecules not produced by that organism and that confer immunity against an infectious organism or product of an infectious organism. Examples include the injection of antibodies and the transfer of maternal antibodies to the fetus. Albert Goldfain Alexander Diehl Lindsay Cowell passive immunization A process in which there is a relatively significant increase in the incidence of infectious disease X, relative to the endemic level of infectious disease X, in an organism population located in a geographicaly connected region. Albert Goldfain Alexander Diehl Lindsay Cowell infectious disease epidemic A process in which multiple infectious disease epidemics of the same infectious disease affect organism populations located in different geographic regions, including different countries and continents, and unfold over overlapping periods of time. Albert Goldfain Alexander Diehl Lindsay Cowell infectious disease pandemic A disorder of a host whose etiology includes the presence of a pathogen within the host, colonization by the normal resident microbiota of host anatomical locations not part of the microbiota's typical habitat, or a symptomatic overgrowth of at least one species of the normal resident microbiota. Albert Goldfain Alexander Diehl Lindsay Cowell infectious disorder An infection defined by the presence of virions in the blood. Albert Goldfain Alexander Diehl Lindsay Cowell viremia An infection defined by the presence of bacteria in the blood. Albert Goldfain Alexander Diehl Lindsay Cowell bacteremia A bacteremia in which the baceteria are replicating. Albert Goldfain Alexander Diehl Lindsay Cowell septicemia An object that is a virus particle, an assembled virus. Albert Goldfain Alexander Diehl Lindsay Cowell virion An aggregation of organisms of the same type that are members of the population because they meet a set of criteria, such as being present in a specified geographic region during a specified period of time. Albert Goldfain Alexander Diehl Lindsay Cowell organism population An organism population whose members participate in processes of transmitting organic material and, in so doing, increase the likelihood of spreading infections agents between members of the organism population. The processes are understood to be canonical life activities for the organism type. Albert Goldfain Alexander Diehl Lindsay Cowell transmissibility community An transmissibility community whose members are playing the host of infectious agent role for the same type of infectious organism. Albert Goldfain Alexander Diehl Lindsay Cowell host of infectious agent population host population infected population An infected population in whose members the infectious disease caused by the infectious organism is realized. Albert Goldfain Alexander Diehl Lindsay Cowell diseased population An organism population whose members have the infectious disposition. Albert Goldfain Alexander Diehl Lindsay Cowell infectious organism population An organism population whose members lack any protective resistance disposition to a specific infectious organism. Albert Goldfain Alexander Diehl Lindsay Cowell at-risk population susceptible population An object aggregate of organisms the members of which typically participate in non-parasitic symbiosis with X. These can participate in parasitic symbiosis when x is immunocompromised or has damaged barriers that normally protect against infection (e.g. skin). Albert Goldfain Alexander Diehl Lindsay Cowell normal resident microflora collection of all normal resident microbiota of an organism of type X An infectious organism population with a certain configuration quality (OGMS:0000039) (distributed across a spatial region (e.g., anatomical location in a host) in a particular way). Put e.g. In comments Albert Goldfain Alexander Diehl Lindsay Cowell configured infectious organism population A population of infectious organisms (of type X) located within an organism site of organism y, such that (1) X has the infectious disposition relative to Y, (2) y has the capability to bear the host of infectious agent role for x, and (3) the population of infectious organisms have the collective capability to cause disease when occupying a particular part of the site. [END] [Maybe include what follows as a term 'microbiota infection'?](3) if part of a configuration of normal resident microbiota for organism type Y has the capability to be a part of an infection when the configuration part (1) occupies anatomical sites that are not part of its typical habitat such that the configuration part has the collective capability to cause disease when occupying that site (e.g., Staph aureus moving from the skin to the blood), or (2) acquires the collective capability via a process of overgrowth. Albert Goldfain Alexander Diehl Lindsay Cowell infection Albert Goldfain Alexander Diehl Lindsay Cowell latent period Albert Goldfain Alexander Diehl Lindsay Cowell incubation period Albert Goldfain Alexander Diehl Lindsay Cowell period of communicability Albert Goldfain Alexander Diehl Lindsay Cowell dormancy period An organism bearing the symbiont role. Albert Goldfain Alexander Diehl Lindsay Cowell symbiont An organism bearing the symbiont role and that can only reach developmental maturity, replicate, or persist by playing the symbiont role. Albert Goldfain Alexander Diehl Lindsay Cowell obligatory symbiont An organism bearing the mutualist role. Albert Goldfain Alexander Diehl Lindsay Cowell mutualist An organism bearing the commensal role. Albert Goldfain Alexander Diehl Lindsay Cowell commensal An organism bearing the parasite role. Albert Goldfain Alexander Diehl Lindsay Cowell parasite An organism with the infectious disposition. Albert Goldfain Alexander Diehl Lindsay Cowell infectious agent An organism with the pathogenic disposition. Albert Goldfain Alexander Diehl Lindsay Cowell pathogen An organism bearing the opportunistic pathogen role. Albert Goldfain Alexander Diehl Lindsay Cowell opportunistic pathogen An organism bearing the primary pathogen role. Albert Goldfain Alexander Diehl Lindsay Cowell primary pathogen An organism bearing the host role. Albert Goldfain Alexander Diehl Lindsay Cowell host An organism bearing the definitive host role. Albert Goldfain Alexander Diehl Lindsay Cowell primary host definitive host An organism bearing the intermediate host role. Albert Goldfain Alexander Diehl Lindsay Cowell secondary host intermediate host An organism bearing the paratenic host role. Albert Goldfain Alexander Diehl Lindsay Cowell paratenic host An organism bearing the dead-end host role. Albert Goldfain Alexander Diehl Lindsay Cowell incidental host dead-end host An organism bearing the host of parasite role. Albert Goldfain Alexander Diehl Lindsay Cowell host of parasite An organism bearing the host of infectious agent role. Albert Goldfain Alexander Diehl Lindsay Cowell host of infectious agent An organism bearing the host of pathogen role. Albert Goldfain Alexander Diehl Lindsay Cowell host of pathogen An organism bearing the carrier of infectious agent role. Albert Goldfain Alexander Diehl Lindsay Cowell carrier of infectious agent An organism bearing the vector of infectious organism role. Albert Goldfain Alexander Diehl Lindsay Cowell vector of infectious organism An organism bearing the mechanical vector of infectious organism role. Albert Goldfain Alexander Diehl Lindsay Cowell mechanical vector of infectious organism An organism bearing the biological vector of infectious organism role. Albert Goldfain Alexander Diehl Lindsay Cowell biological vector of infectious organism An organism bearing the vehicle of infectious organism role. Albert Goldfain Alexander Diehl Lindsay Cowell vehicle of infectious organism An organism bearing the fomite role. Albert Goldfain Alexander Diehl Lindsay Cowell fomite A material entity bearing the reservoir of infectious organism role. Albert Goldfain Alexander Diehl Lindsay Cowell reservoir of infectious organism A material entity bearing the end reservoir of infectious organism role. Albert Goldfain Alexander Diehl Lindsay Cowell dead-end reservoir of infectious organism end reservoir of infectious organism A protein or macromolecular complex bearing the virulence factor role. Albert Goldfain Alexander Diehl Lindsay Cowell virulence factor A protein or macromolecular complex bearing the invasion factor role. Albert Goldfain Alexander Diehl Lindsay Cowell invasin invasion factor A protein or macromolecular complex bearing the toxin of pathogen role. Albert Goldfain Alexander Diehl Lindsay Cowell toxin of pathogen A protein or macromolecular complex bearing the exotoxin role. Albert Goldfain Alexander Diehl Lindsay Cowell exotoxin A protein or macromolecular complex bearing the enterotoxin role. Albert Goldfain Alexander Diehl Lindsay Cowell enterotoxin A protein or macromolecular complex bearing the endotoxin role, in particular LPS. Albert Goldfain Alexander Diehl Lindsay Cowell endotoxin An anatomical entity bearing the portal of entry of infectious agent role. Albert Goldfain Alexander Diehl Lindsay Cowell portal of entry of infectious agent An anatomical entity bearing the portal of exit of infectious agent role. Albert Goldfain Alexander Diehl Lindsay Cowell portal of exit of infectious agent A material entity bearing the disinfectant role. Albert Goldfain Alexander Diehl Lindsay Cowell disinfectant A material entity bearing the antiseptic role. Albert Goldfain Alexander Diehl Lindsay Cowell antiseptic A protein or macromolecular complex bearing the adhesion factor disposition. Albert Goldfain Alexander Diehl Lindsay Cowell adhesin adhesion factor A material entity bearing the antimicrobial disposition. Albert Goldfain Alexander Diehl Lindsay Cowell antimicrobial A material entity bearing the antiviral disposition. Albert Goldfain Alexander Diehl Lindsay Cowell antiviral A material entity bearing the antifungal disposition. Albert Goldfain Alexander Diehl Lindsay Cowell antifungal A material entity bearing the antiparasitic disposition. Albert Goldfain Alexander Diehl Lindsay Cowell antiparasitic A material entity bearing the antibiotic disposition. Albert Goldfain Alexander Diehl Lindsay Cowell antibiotic A material entity bearing an antimicrobial disposition that is realized in a process of killing microorganisms. Albert Goldfain Alexander Diehl Lindsay Cowell microbicidal [entity] microbicide A material entity bearing an antiviral disposition that is realized in a process of killing viruses. Albert Goldfain Alexander Diehl Lindsay Cowell viricide A material entity bearing an antimicrobial disposition that is realized in a process of inhibiting the growth of microorganisms. Albert Goldfain Alexander Diehl Lindsay Cowell microbistatic An infection bearing the primary infection role. Albert Goldfain Alexander Diehl Lindsay Cowell primary infection An infection bearing the secondar infection role. Albert Goldfain Alexander Diehl Lindsay Cowell secondary infection An infectious disease that has as its physical basis an infection composed of microorganims that have the zoonotic disposition. Albert Goldfain Alexander Diehl Lindsay Cowell zoonosis A quality inhering in a bearer of the host role by virtue of the fact that the host is infected but has no signs or symptoms; has infection but lacks symptoms, or disease is realzied by lakcs symptoms Albert Goldfain Alexander Diehl Lindsay Cowell aymptomatic A quality that inheres in an infection by virtue of the fact that the host is asymptomatic. Albert Goldfain Alexander Diehl Lindsay Cowell subclinical A quality that inheres in a bearer by virtue of the fact that the bearer has low susceptibility to some entity. Albert Goldfain Alexander Diehl Lindsay Cowell resistance quality carrier of infectious agent that has_quality chronic Albert Goldfain Alexander Diehl Lindsay Cowell chronic carrier of infectious agent A host of infectious agent role played by a material entity by virtue of the fact that it has symptoms of the infectious disease associated with the infectious agent Albert Goldfain Alexander Diehl Lindsay Cowell symptomatic host of infectious agent Albert Goldfain Alexander Diehl Lindsay Cowell obsolete_invasin A latent infection is a phase in certain viruses' life cycles in which after initial infection, virus production ceases; some proteins are being made that actively suppress other genes of virus. So therefore not dormant. Virus latency is not to be confused with clinical latency during the incubation period when a virus is not dormant Albert Goldfain Alexander Diehl Lindsay Cowell viral latency An immunity to infectious organism realized in an innate immune response (GO:0045087). Albert Goldfain Alexander Diehl Lindsay Cowell innate immunity to infectious agent An immunity to infectious organism realized in an adaptive immune response (GO:0002250). Albert Goldfain Alexander Diehl Lindsay Cowell adaptive immunity to infectious agent An immunity to infectious organism realized in a humoral immune response (GO:0006959). Albert Goldfain Alexander Diehl Lindsay Cowell humoral immunity to infectious agent An immunity to infectious organism realized in an immune response (GO:0006955) whose participants are T cells or other cells of the immune system. Albert Goldfain Alexander Diehl Lindsay Cowell cell-mediated immunity to infectious agent An immunity to infectious organism that results from a passive immunization (IDO:0000066). Albert Goldfain Alexander Diehl Lindsay Cowell passive immunity Albert Goldfain Alexander Diehl Lindsay Cowell antibiotic resistance Albert Goldfain Alexander Diehl Lindsay Cowell long-term non-progressor Albert Goldfain Alexander Diehl Lindsay Cowell emerging pathogen placeholder _defined immunity to infectious organism placeholder _defined disposition placeholder _defined role placeholder _defined quality placeholder _defined infectious disease placeholder _defined infection placeholder _defined cellular component placeholder _defined material entity placeholder _defined organism placeholder _defined class An organism is 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. organism definition editor note definition editor alternative term definition source imported from