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omp-simple.obo
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format-version: 1.2
data-version: releases/2024-03-25
date: 13:04:2021 14:52
saved-by: siegele
auto-generated-by: OBO-Edit 2.3.1
subsetdef: abnormal_slim "Abnormal/normal slim"
subsetdef: absent_slim "Absent/present slim"
subsetdef: attribute_slim "Attribute slim"
subsetdef: cell_quality "cell_quality"
subsetdef: Cross_product_review "Involved_in"
subsetdef: disposition_slim "Disposition slim"
subsetdef: goantislim_grouping "Grouping classes that can be excluded"
subsetdef: goslim_aspergillus "Aspergillus GO slim"
subsetdef: goslim_candida "Candida GO slim"
subsetdef: goslim_generic "Generic GO slim"
subsetdef: goslim_goa "GOA and proteome slim"
subsetdef: goslim_metagenomics "Metagenomics GO slim"
subsetdef: goslim_pir "PIR GO slim"
subsetdef: goslim_plant "Plant GO slim"
subsetdef: goslim_pombe "Fission yeast GO slim"
subsetdef: goslim_virus "Viral GO slim"
subsetdef: goslim_yeast "Yeast GO slim"
subsetdef: gosubset_prok "Prokaryotic GO subset"
subsetdef: hpo_slim "Human phenotype slim"
subsetdef: mf_needs_review "Catalytic activity terms in need of attention"
subsetdef: mpath_slim "Pathology slim"
subsetdef: qc_do_not_annotate "Term not to be used for direct annotation"
subsetdef: qc_do_not_manually_annotate "Term not to be used for direct manual annotation"
subsetdef: relational_slim "Relational slim: types of quality that require an additional entity in order to exist"
subsetdef: scalar_slim "Scalar slim"
subsetdef: SOFA "SO feature annotation"
subsetdef: value_slim "Value slim"
subsetdef: virus_checked "Viral overhaul terms"
synonymtypedef: BRAND_NAME "BRAND NAME"
synonymtypedef: FORMULA "FORMULA"
synonymtypedef: InChI "InChI"
synonymtypedef: InChIKey "InChIKey"
synonymtypedef: INN "INN"
synonymtypedef: IUPAC_NAME "IUPAC NAME"
synonymtypedef: SMILES "SMILES"
synonymtypedef: systematic_synonym "Systematic synonym" EXACT
default-namespace: microbial_phenotype
remark: select is_a closure
ontology: omp
[Term]
id: OMP:0000000
name: microbial phenotype
def: "The observable manifestation of the genotype of a microbial cell or group of cells in an environment." [OMP:MCC]
creation_date: 2011-03-10T04:01:50Z
[Term]
id: OMP:0000001
name: motility phenotype
def: "A locomotion phenotype where the trait in question is the self-propelled movement of a microbe from one location to another." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0048870 "cell motility"
is_a: OMP:0000312 ! locomotion phenotype
is_a: OMP:0007197 ! cellular component phenotype
creation_date: 2011-03-10T06:55:06Z
[Term]
id: OMP:0000002
name: decreased motility
def: "An altered motility phenotype where the frequency, rate, timing, or extent of a microbe's motility is decreased relative to a designated control." [OMP:MCC]
xref: PATO:0002297
is_a: OMP:0007001 ! altered motility
creation_date: 2011-03-10T07:02:42Z
[Term]
id: OMP:0000003
name: cell arrangement phenotype
def: "A microbial phenotype where the trait in question is the arrangement of cells of a microbe in relation to one another." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
is_a: OMP:0000000 ! microbial phenotype
created_by: mchibucos
creation_date: 2011-04-14T02:30:07Z
[Term]
id: OMP:0000004
name: taxis phenotype
def: "A locomotion phenotype where the directed movement of a motile microbe is in response to an external stimulus." [ISBN:0192800329, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
is_a: OMP:0000312 ! locomotion phenotype
created_by: mchibucos
creation_date: 2011-04-14T03:29:20Z
[Term]
id: OMP:0000005
name: presence of motility
def: "A motility phenotype where a microbe possesses the ability to perform controlled self-propelled movement that results in translocation from one place to another." [OMP:MCC]
synonym: "motile" RELATED []
is_a: OMP:0000001 ! motility phenotype
created_by: mchibucos
creation_date: 2011-04-14T03:35:35Z
[Term]
id: OMP:0000006
name: presence of akinete formation
def: "An akinete formation phenotype where a cell or cells have the ability to differentiate into an akinete." [OMP:MCC]
is_a: OMP:0000093 ! akinete formation phenotype
is_a: OMP:0007143 ! presence of asexual sporulation
created_by: mchibucos
creation_date: 2011-04-26T02:51:36Z
[Term]
id: OMP:0000007
name: absence of akinete formation
def: "An akinete formation phenotype where a cell or cells do not possess the ability to form an akinete." [OMP:MCC]
is_a: OMP:0000093 ! akinete formation phenotype
is_a: OMP:0007236 ! absence of asexual sporulation
created_by: mchibucos
creation_date: 2011-04-26T02:52:52Z
[Term]
id: OMP:0000008
name: presence of budding
def: "A budding phenotype where an organism reproduces by the process of budding." [OMP:MCC]
is_a: OMP:0000089 ! budding phenotype
created_by: mchibucos
creation_date: 2011-04-26T02:58:46Z
[Term]
id: OMP:0000009
name: decreased cell surface area-to-volume ratio
is_a: OMP:0007999 ! altered cell surface area-to-volume ratio
created_by: siegele
creation_date: 2020-07-22T22:22:03Z
[Term]
id: OMP:0000010
name: presence of heterocysts
def: "A heterocyst formation phenotype where a cell possesses the ability to differentiate into a heterocyst." [OMP:MCC]
is_a: OMP:0000092 ! heterocyst formation phenotype
created_by: mchibucos
creation_date: 2011-04-26T02:59:42Z
[Term]
id: OMP:0000011
name: absence of heterocysts
def: "A heterocyst formation phenotype where an organism does not possess the ability to differentiate into a heterocyst." [OMP:MCC]
is_a: OMP:0000092 ! heterocyst formation phenotype
created_by: mchibucos
creation_date: 2011-04-26T02:59:42Z
[Term]
id: OMP:0000012
name: abolished spore germination efficiency
def: "A decreased spore germination phenotype where no spores germinate." [OMP:MCC]
is_a: OMP:0007223 ! decreased spore germination efficiency
created_by: mchibucos
creation_date: 2011-04-26T03:01:38Z
[Term]
id: OMP:0000013
name: decreased endospore formation
def: "An altered endospore formation phenotype where the rate, frequency, timing, or extent of endospore formation is decreased relative to a designated control." [OMP:JCH]
is_a: OMP:0006161 ! altered endospore formation
created_by: mchibucos
creation_date: 2011-06-07T10:14:15Z
[Term]
id: OMP:0000014
name: increased endospore formation
def: "An altered endospore formation phenotype where the rate, frequency, timing, or extent of endospore formation is increased relative to a designated control." [OMP:JCH]
is_a: OMP:0006161 ! altered endospore formation
created_by: mchibucos
creation_date: 2011-06-07T10:14:39Z
[Term]
id: OMP:0000015
name: decreased heterocyst formation
def: "A heterocyst formation phenotype where heterocyst formation is decreased relative to a designated control." [OMP:MCC]
is_a: OMP:0006007 ! altered heterocyst formation
created_by: mchibucos
creation_date: 2011-04-26T03:05:35Z
[Term]
id: OMP:0000016
name: delayed spore germination
def: "A spore germination phenotype where a spore undergoes germination after a longer than usual dormancy period." [OMP:MCC]
is_a: OMP:0007353 ! altered spore germination
created_by: mchibucos
creation_date: 2011-04-26T03:07:11Z
[Term]
id: OMP:0000017
name: presence of endospore formation
def: "An endospore formation phenotype where the cell possesses the ability to form an endospore." [OMP:MCC]
is_a: OMP:0000094 ! endospore formation phenotype
is_a: OMP:0007143 ! presence of asexual sporulation
created_by: mchibucos
creation_date: 2011-04-26T03:09:10Z
[Term]
id: OMP:0000018
name: absence of endospore formation
def: "An endospore formation phenotype where the cell does not possess the ability to form an endospore." [OMP:MCC]
is_a: OMP:0000094 ! endospore formation phenotype
is_a: OMP:0007236 ! absence of asexual sporulation
created_by: mchibucos
creation_date: 2011-04-26T03:09:25Z
[Term]
id: OMP:0000019
name: increased cell surface area-to-volume ratio
is_a: OMP:0007999 ! altered cell surface area-to-volume ratio
created_by: siegele
creation_date: 2020-07-22T22:22:03Z
[Term]
id: OMP:0000020
name: presence of myxospore formation
def: "A myxospore formation phenotype where an organism possesses the ability to form myxospores." [OMP:MCC]
is_a: OMP:0000096 ! myxospore formation phenotype
is_a: OMP:0007143 ! presence of asexual sporulation
created_by: mchibucos
creation_date: 2011-04-26T03:10:51Z
[Term]
id: OMP:0000021
name: absence of myxospore formation
def: "A myxospore formation phenotype where an organism does not possess the ability to form myxospores." [OMP:MCC]
is_a: OMP:0000096 ! myxospore formation phenotype
is_a: OMP:0007236 ! absence of asexual sporulation
created_by: mchibucos
creation_date: 2011-04-26T03:10:51Z
[Term]
id: OMP:0000022
name: decreased myxospore formation
def: "An altered myxospore formation phenotype where the rate, frequency, timing, or extent of myxospore formation is decreased relative to a designated control." [OMP:MCC]
is_a: OMP:0006009 ! altered myxospore formation
created_by: mchibucos
creation_date: 2011-04-26T03:10:51Z
[Term]
id: OMP:0000023
name: periplasmic flagellum/flagella
def: "A flagellum distribution phenotype where the flagellum filament of an organism is located in the periplasm and does not extend past the cell envelope." [ISBN:9780073402406, OMP:DAS]
synonym: "axial fibril" RELATED []
synonym: "axial filament" NARROW []
synonym: "endoflagella" RELATED []
is_a: OMP:0000078 ! flagellum arrangement phenotype
created_by: mchibucos
creation_date: 2011-06-07T11:12:48Z
[Term]
id: OMP:0000024
name: altered flagellum length
def: "An altered flagellum phenotype where the length of the flagellum is altered relative to a designated control." [OMP:MCC]
is_a: OMP:0007105 ! altered flagellum
created_by: mchibucos
creation_date: 2011-06-07T11:19:56Z
[Term]
id: OMP:0000025
name: altered cell surface area-to-volume ratio variability
is_a: OMP:0007918 ! altered cell size variability within a cell population
is_a: OMP:0007999 ! altered cell surface area-to-volume ratio
created_by: siegele
creation_date: 2020-07-22T22:23:15Z
[Term]
id: OMP:0000026
name: host-virus interaction phenotype
def: "A microbial phenotype related to the ability of a host to be infected by and/or support reproduction of a virus." [OMP:JCH]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
synonym: "host-bacteriophage interaction phenotype" NARROW []
synonym: "host-phage interaction phenotype" NARROW []
is_a: OMP:0000000 ! microbial phenotype
created_by: mchibucos
creation_date: 2011-06-06T02:39:55Z
[Term]
id: OMP:0000027
name: flagellum morphology phenotype
def: "A cell projection morphology phenotype relating to the size, shape, or appearance of flagella, which are threadlike structures borne either singly or in groups by a motile cell, which propel the cell." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
synonym: "axial filament phenotype" NARROW []
is_a: OMP:0000083 ! cell projection morphology phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:26:26Z
[Term]
id: OMP:0000028
name: decreased number of pili
def: "A presence of pilus phenotype where a microorganism has fewer pili per cell relative to a designated control." [OMP:MCC]
synonym: "decreased fimbriae formation" EXACT []
is_a: OMP:0006010 ! altered pilus phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:29:28Z
[Term]
id: OMP:0000029
name: presence of flagellum
def: "A flagellum phenotype where the organism possesses a flagellum or flagella in at least some environments." [OMP:MCC]
is_a: OMP:0000027 ! flagellum morphology phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:29:34Z
[Term]
id: OMP:0000030
name: absence of flagellum
def: "A flagellum phenotype where the organism does not possess a flagellum or flagella." [OMP:MCC]
synonym: "non-flagellated phenotype" RELATED []
is_a: OMP:0000027 ! flagellum morphology phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:29:50Z
[Term]
id: OMP:0000031
name: altered flagellum shape
def: "An altered flagellum phenotype where the shape of the flagellum is altered relative to a designated control." [OMP:MCC]
is_a: OMP:0007105 ! altered flagellum
created_by: mchibucos
creation_date: 2011-04-26T03:41:37Z
[Term]
id: OMP:0000032
name: decreased cell surface area-to-volume ratio variability
is_a: OMP:0000025 ! altered cell surface area-to-volume ratio variability
created_by: siegele
creation_date: 2020-07-22T22:24:44Z
[Term]
id: OMP:0000033
name: absence of pilus
def: "A pilus phenotype where an organism does not possess a pilus." [OMP:MCC]
synonym: "fimbria absent" EXACT []
is_a: OMP:0000084 ! pilus morphology phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:44:01Z
[Term]
id: OMP:0000034
name: presence of pilus
def: "A pilus phenotype where a microorganism produces a pilus or pili in one or more growth conditions." [OMP:MCC]
comment: Fimbria (plural, fimbriae) is a common synonym for pilus (plural, pili).
synonym: "fimbria present" EXACT []
is_a: OMP:0000084 ! pilus morphology phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:44:22Z
[Term]
id: OMP:0000035
name: malformed pilus
def: "A pilus phenotype where the cell possesses a pilus that was distorted during formation." [OMP:MCC]
synonym: "malformed fimbrium" EXACT []
is_a: OMP:0006010 ! altered pilus phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:44:34Z
[Term]
id: OMP:0000036
name: increased amount of capsule
def: "An altered capsule phenotype where the amount of capsule is increased relative to a designated control." [OMP:DAS]
is_a: OMP:0007133 ! altered capsule phenotype
created_by: mchibucos
creation_date: 2011-06-07T10:53:11Z
[Term]
id: OMP:0000037
name: increased flagellum length
def: "An altered flagellum length phenotype where the length of the flagellum is longer than a designated control." [OMP:MCC]
is_a: OMP:0000024 ! altered flagellum length
created_by: mchibucos
creation_date: 2011-06-07T11:25:05Z
[Term]
id: OMP:0000038
name: increased cell surface area-to-volume ratio variability
is_a: OMP:0000025 ! altered cell surface area-to-volume ratio variability
created_by: siegele
creation_date: 2020-07-22T22:24:44Z
[Term]
id: OMP:0000039
name: O2 effects on population growth phenotype
def: "A population growth range phenotype related to how growth of a microbial population is affected by different concentrations of oxygen gas (O2) in the environment." [OMP:WAM]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_annotate
subset: qc_do_not_manually_annotate
is_a: OMP:0007192 ! effect of non-nutrient environmental factors on population growth phenotype
created_by: mchibucos
creation_date: 2011-06-06T03:36:04Z
[Term]
id: OMP:0000040
name: decreased cell size
def: "An altered cell size phenotype where the size of a cell or cells is decreased relative to a designated control." [OMP:MCC]
is_a: OMP:0007083 ! altered cell size
created_by: mchibucos
creation_date: 2011-04-26T03:47:26Z
[Term]
id: OMP:0000041
name: increased cell size
def: "An altered cell size phenotype where the volume of a cell or cells is increased relative to a designated control." [OMP:MCC]
is_a: OMP:0007083 ! altered cell size
created_by: mchibucos
creation_date: 2011-04-26T03:49:09Z
[Term]
id: OMP:0000042
name: anucleoid
def: "A nucleoid phenotype where the nucleoid is absent in some fraction of cells in a population." [OMP:DAS]
is_a: OMP:0000150 ! nucleoid phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:51:47Z
[Term]
id: OMP:0000043
name: nucleoid number phenotype
def: "A nucleoid phenotype dealing with the number of nucleoid regions in the cell." [OMP:WAM]
is_a: OMP:0000150 ! nucleoid phenotype
created_by: mchibucos
creation_date: 2011-04-26T03:53:34Z
[Term]
id: OMP:0000044
name: altered cell circularity
def: "Cell circularity is defined as (2*pi*cell area/(cell perimeter)^2)." [OMP:das]
is_a: OMP:0000333 ! cell circularity phenotype
is_a: OMP:0007101 ! altered cell shape
created_by: siegele
creation_date: 2020-07-22T22:30:41Z
[Term]
id: OMP:0000045
name: increased motility
def: "An altered motility phenotype where the frequency, rate, timing, or extent of motility of a microbe is increased relative to a designated control." [OMP:MCC]
xref: PATO:0002298
is_a: OMP:0007001 ! altered motility
created_by: mchibucos
creation_date: 2011-04-26T04:08:26Z
[Term]
id: OMP:0000046
name: presence of chemotaxis
def: "A chemotaxis phenotype where a motile microbe displays directed movement in response to a specific chemical concentration gradient." [OMP:MCC]
is_a: OMP:0000048 ! chemotaxis phenotype
created_by: mchibucos
creation_date: 2011-04-26T04:17:42Z
[Term]
id: OMP:0000047
name: aerotaxis phenotype
def: "A taxis phenotype where directed movement of a motile microbe is in response to environmental oxygen (O2)." [ISBN:0192800329, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0009454 "aerotaxis"
is_a: OMP:0000004 ! taxis phenotype
created_by: mchibucos
creation_date: 2011-04-26T04:18:11Z
[Term]
id: OMP:0000048
name: chemotaxis phenotype
def: "A taxis phenotype where the directed movement of a motile microbe is in response to a specific chemical concentration gradient." [ISBN:0198506732, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.\n\nChEBI cross product candidate (and child terms).
subset: qc_do_not_manually_annotate
xref: GO:0006935
is_a: OMP:0000004 ! taxis phenotype
created_by: mchibucos
creation_date: 2011-04-26T04:27:11Z
[Term]
id: OMP:0000049
name: presence of aerotaxis
def: "An aerotaxis phenotype where a motile microbe displays directed movement in response to environmental oxygen (O2)." [OMP:MCC]
is_a: OMP:0000047 ! aerotaxis phenotype
created_by: mchibucos
creation_date: 2011-04-26T04:27:42Z
[Term]
id: OMP:0000050
name: decreased amount of capsule
def: "An altered capsule phenotype where the amount of capsule produced is decreased relative to a designated control." [OMP:DAS]
is_a: OMP:0007133 ! altered capsule phenotype
created_by: mchibucos
creation_date: 2011-06-07T10:53:59Z
[Term]
id: OMP:0000051
name: decreased cell circularity
is_a: OMP:0000044 ! altered cell circularity
created_by: siegele
creation_date: 2020-07-22T22:32:02Z
[Term]
id: OMP:0000052
name: presence of positive chemotaxis
def: "A presence of chemotaxis phenotype where a motile microbe displays directed movement towards a higher concentration of a chemical." [OMP:MCC]
is_a: OMP:0000046 ! presence of chemotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:42:14Z
[Term]
id: OMP:0000053
name: presence of negative chemotaxis
def: "A presence of chemotaxis phenotype where a motile microbe displays directed movement toward a lower concentration of a chemical (away from a higher concentration of a chemical)." [OMP:MCC]
synonym: "repellent" RELATED []
is_a: OMP:0000046 ! presence of chemotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:42:14Z
[Term]
id: OMP:0000054
name: absence of positive chemotaxis
def: "An absence of chemotaxis phenotype where an organism doesn't display directed movement toward a higher concentration of a specific chemical." [OMP:MCC]
is_a: OMP:0000097 ! absence of chemotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:42:14Z
[Term]
id: OMP:0000055
name: absence of negative chemotaxis
def: "An absence of chemotaxis phenotype where an organism doesn't display directed movement toward a lower concentration of a specific chemical." [OMP:MCC]
is_a: OMP:0000097 ! absence of chemotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:42:14Z
[Term]
id: OMP:0000056
name: presence of positive aerotaxis
def: "A presence of aerotaxis phenotype where a motile cell or organism displays directed movement towards a higher concentration of environmental oxygen." [OMP:MCC]
xref: GO:0052131
is_a: OMP:0000049 ! presence of aerotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:44:17Z
[Term]
id: OMP:0000057
name: presence of negative aerotaxis
def: "A presence of aerotaxis phenotype where a motile cell or organism displays directed movement towards a lower concentration of environmental oxygen." [OMP:MCC]
xref: GO:0052130
is_a: OMP:0000049 ! presence of aerotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:44:17Z
[Term]
id: OMP:0000058
name: absence of positive aerotaxis
def: "An absence of aerotaxis phenotype where a motile microbe doesn't display directed movement towards a higher concentration of environmental oxygen (O2)." [OMP:MCC]
is_a: OMP:0000159 ! absence of aerotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:44:17Z
[Term]
id: OMP:0000059
name: absence of negative aerotaxis
def: "An absence of aerotaxis phenotype where a motile microbe doesn't display directed movement away from a higher concentration of environmental oxygen (O2)." [OMP:MCC]
is_a: OMP:0000159 ! absence of aerotaxis
created_by: mchibucos
creation_date: 2011-04-26T04:44:17Z
[Term]
id: OMP:0000060
name: presence of quorum sensing
def: "A quorum sensing phenotype where an organism possesses the ability to monitor its population density by detecting the concentration of small, diffusible signal molecules." [OMP:MCC]
is_a: OMP:0000069 ! quorum sensing phenotype
created_by: mchibucos
creation_date: 2011-04-26T05:02:51Z
[Term]
id: OMP:0000061
name: decreased virulence
def: "An altered virulence phenotype where the rate, frequency, timing, or extent of the ability of a microbe to cause disease in another organism (the host) is decreased relative to a designated control." [OMP:MCC]
synonym: "less virulent" EXACT []
xref: PATO:0002147
is_a: OMP:0000098 ! altered virulence
created_by: mchibucos
creation_date: 2011-04-26T05:02:57Z
[Term]
id: OMP:0000062
name: increased virulence
def: "An altered virulence phenotype where the rate, frequency, timing, or extent of the ability of a microbe to cause disease in another organism (the host) is increased relative to a designated control." [OMP:MCC]
synonym: "more virulent" RELATED []
xref: PATO:0002148
is_a: OMP:0000098 ! altered virulence
created_by: mchibucos
creation_date: 2011-04-26T05:03:12Z
[Term]
id: OMP:0000063
name: absence of quorum sensing
def: "A quorum sensing phenotype where an organism does not possess the ability to monitor its population density by detecting the concentration of small, diffusible signal molecules." [OMP:MCC]
is_a: OMP:0000069 ! quorum sensing phenotype
created_by: mchibucos
creation_date: 2011-04-26T05:06:00Z
[Term]
id: OMP:0000064
name: increased cell circularity
is_a: OMP:0000044 ! altered cell circularity
created_by: siegele
creation_date: 2020-07-22T22:32:02Z
[Term]
id: OMP:0000065
name: absence of virulence
def: "A virulence phenotype where an organism does not possess the ability to cause disease in another organism (host)." [OMP:MCC]
synonym: "avirulence" EXACT []
synonym: "incompatible interaction" EXACT []
is_a: OMP:0000068 ! virulence phenotype
created_by: mchibucos
creation_date: 2011-04-26T05:06:35Z
[Term]
id: OMP:0000066
name: abolished virulence
def: "A decreased virulence phenotype where rate, frequency, timing, or extent of the ability of a microbe to cause disease in a host is abolished." [OMP:MCC]
is_a: OMP:0000061 ! decreased virulence
is_a: OMP:0000065 ! absence of virulence
created_by: mchibucos
creation_date: 2011-04-26T05:09:24Z
[Term]
id: OMP:0000067
name: presence of motility by swarming
def: "A presence of motility phenotype where a population of microbes exhibit coordinated translocation across solid or semi-solid surfaces." [OMP:MCC]
is_a: OMP:0000005 ! presence of motility
created_by: adrienne
creation_date: 2011-02-02T03:28:43Z
[Term]
id: OMP:0000068
name: virulence phenotype
def: "A microbe-host interaction phenotype related to the ability of a microbe to cause disease in another organism (the host)." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
synonym: "infectious agent" BROAD []
synonym: "pathogen" BROAD []
xref: APO:0000048 "virulence"
xref: GO:0009405 "pathogenesis"
is_a: OMP:0000197 ! microbe-host interaction phenotype
created_by: adrienne
creation_date: 2011-02-02T03:28:59Z
[Term]
id: OMP:0000069
name: quorum sensing phenotype
def: "A microbial communication phenotype where cells sense their population density by detecting the concentration of small, diffusible signal molecules produced by the cells themselves." [GO:0009372, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0009372 "quorum sensing"
is_a: OMP:0000101 ! microbial communication phenotype
created_by: adrienne
creation_date: 2011-02-07T03:47:50Z
[Term]
id: OMP:0000070
name: cell development phenotype
def: "A microbial phenotype where the trait in question is the progression of a cell from an initial condition to a later condition." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0048869 "cellular developmental process"
is_a: OMP:0007332 ! cellular process phenotype
created_by: adrienne
creation_date: 2011-02-02T03:11:48Z
[Term]
id: OMP:0000071
name: cell morphology phenotype
def: "A microbial phenotype related to the form and structure of a microbial cell." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: APO:0000050 "cellular morphology"
is_a: OMP:0007197 ! cellular component phenotype
is_a: OMP:0007633 ! cellular physical quality phenotype
created_by: adrienne
creation_date: 2011-02-02T03:15:16Z
[Term]
id: OMP:0000072
name: filamentous
def: "A cell arrangement phenotype where cells are joined end-to-end in linear chains." [OMP:MCC]
is_a: OMP:0000003 ! cell arrangement phenotype
created_by: adrienne
creation_date: 2011-02-02T03:31:35Z
[Term]
id: OMP:0000073
name: cell shape phenotype
def: "A cell morphology phenotype where the trait in question is the shape of a cell." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: APO:0000051 "cell shape"
is_a: OMP:0000071 ! cell morphology phenotype
created_by: adrienne
creation_date: 2011-02-02T03:18:02Z
[Term]
id: OMP:0000074
name: cell size phenotype
def: "A cell morphology phenotype where the trait in question is the size of a cell." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: APO:0000052 "cell size"
is_a: OMP:0000071 ! cell morphology phenotype
created_by: adrienne
creation_date: 2011-02-02T03:18:19Z
[Term]
id: OMP:0000075
name: coccus
def: "A spheroid cell phenotype where a cell is spherical or nearly spherical." [ISBN:9780073402406, OMP:MCC]
synonym: "spherical-shaped" EXACT []
is_a: OMP:0007100 ! spheroid cell shape
created_by: adrienne
creation_date: 2011-02-02T03:18:29Z
[Term]
id: OMP:0000076
name: rod-shaped cells
def: "A cylindrical cell phenotype where an organism has rod-shaped cells." [ISBN:9780073402406, OMP:MCC]
synonym: "bacillus" EXACT []
is_a: OMP:0007099 ! cylindrical cell shape
created_by: adrienne
creation_date: 2011-02-02T03:18:47Z
[Term]
id: OMP:0000077
name: vibrio
def: "A spiral cell shape phenotype where a rod-shaped cell is curved to form a comma-like shape or incomplete spiral." [ISBN:9780073402406, OMP:AEZ]
is_a: OMP:0000086 ! spiral cell shape
created_by: adrienne
creation_date: 2011-02-02T03:19:31Z
[Term]
id: OMP:0000078
name: flagellum arrangement phenotype
def: "A flagellum phenotype where the trait in question is the location of the flagellum on an organism." [OMP:MCC]
is_a: OMP:0000027 ! flagellum morphology phenotype
created_by: adrienne
creation_date: 2011-02-02T03:43:16Z
[Term]
id: OMP:0000079
name: monotrichous
def: "A flagellum distribution phenotype where an organism has a single flagellum." [ISBN:9780073402406]
synonym: "single flagellum" EXACT []
is_a: OMP:0000078 ! flagellum arrangement phenotype
created_by: adrienne
creation_date: 2011-02-02T03:44:18Z
[Term]
id: OMP:0000080
name: amphitrichous
def: "A flagellum distribution phenotype where an organism has a single flagellum at each end of the cell." [ISBN:9780073402406, OMP:MCC]
is_a: OMP:0000078 ! flagellum arrangement phenotype
created_by: adrienne
creation_date: 2011-02-02T03:45:34Z
[Term]
id: OMP:0000081
name: lophotrichous
def: "A flagellum distribution phenotype where an organism has multiple flagella located at one or both ends of a cell." [ISBN:9780073402406]
is_a: OMP:0000078 ! flagellum arrangement phenotype
created_by: adrienne
creation_date: 2011-02-02T03:46:16Z
[Term]
id: OMP:0000082
name: peritrichous flagella
def: "A flagellum distribution phenotype where an organism has multiple flagella dispersed across the cell surface." [ISBN:9780073402406, OMP:MCC]
is_a: OMP:0000078 ! flagellum arrangement phenotype
created_by: adrienne
creation_date: 2011-02-02T03:46:44Z
[Term]
id: OMP:0000083
name: cell projection morphology phenotype
def: "A cell morphology phenotype relating to the size, shape, or appearance of a structure that is a prolongation or process extending from a cell." [GO:0042995, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we recommend that it not be used for direct annotation. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
synonym: "cell appendage phenotype" EXACT []
xref: GO:0042995 "cell projection"
is_a: OMP:0000071 ! cell morphology phenotype
created_by: adrienne
creation_date: 2011-02-02T03:47:44Z
[Term]
id: OMP:0000084
name: pilus morphology phenotype
def: "A cell projection phenotype morphology where the structure in question is a proteinaceous hair-like appendage on the surface of a microbial cell." [ISBN:9780073402406, OMP:MCC]
synonym: "fimbria phenotype" EXACT [GO:0009289]
is_a: OMP:0000083 ! cell projection morphology phenotype
created_by: adrienne
creation_date: 2011-02-02T03:47:57Z
[Term]
id: OMP:0000085
name: cell envelope morphology phenotype
def: "A cell morphology phenotype relating to the size, shape, or appearance of the envelope that surrounds a microbial cell. The envelope includes the cytoplasmic membrane and everything external to the cytoplasmic membrane, encompassing the periplasmic space, cell wall, and outer membrane. Additional layers, such as capsules or S-layers, are also part of the envelope." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
is_a: OMP:0000071 ! cell morphology phenotype
created_by: adrienne
creation_date: 2011-02-02T03:49:03Z
[Term]
id: OMP:0000086
name: spiral cell shape
def: "A cell shape phenotype where a cell is helical or cork-screw shaped." [OMP:MCC]
synonym: "curved rod" RELATED []
synonym: "spirillum" NARROW []
synonym: "spirochete" NARROW []
synonym: "vibrio" NARROW []
is_a: OMP:0000073 ! cell shape phenotype
created_by: adrienne
creation_date: 2011-02-02T03:19:47Z
[Term]
id: OMP:0000087
name: facultative anaerobe
def: "A microbial phenotype that describes a microorganism that does not require oxygen gas (O2) for growth but will utilize O2 in metabolic reactions when it is present." [ISBN:9780073402406, OMP:WAM]
synonym: "facultative aerobe" EXACT [ISBN:978-0134261928]
is_a: OMP:0007928 ! commonly used descriptors
created_by: mchibucos
creation_date: 2011-06-06T03:42:26Z
[Term]
id: OMP:0000088
name: filamentous colony
def: "A colony form phenotype characterized by growth of thin individual projections in the colony." [OMP:WAM]
xref: SNOMEDCT:31153000
is_a: OMP:0000103 ! colony form phenotype
created_by: mchibucos
creation_date: 2011-06-07T12:08:48Z
[Term]
id: OMP:0000089
name: budding phenotype
def: "An asexual reproduction phenotype related to the process of budding, where a new individual forms from an outgrowth (bud) on the body of the parental organism." [OMP:DAS]
xref: GO:0007114 "cell budding"
is_a: OMP:0007066 ! asexual reproduction phenotype
created_by: adrienne
creation_date: 2011-02-02T03:23:41Z
[Term]
id: OMP:0000090
name: lifespan phenotype
def: "An organismal growth phenotype dealing with the lifespan of a microorganism, cell, or cells." [OMP:WAM]
is_a: OMP:0000174 ! growth phenotype
created_by: adrienne
creation_date: 2011-02-02T03:24:11Z
[Term]
id: OMP:0000091
name: sporulation phenotype
def: "A cell development phenotype related to formation of a spore, a dormant differentiated cell that can be used for dissemination, survival in adverse conditions, or reproduction." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0043934 "sporulation"
is_a: OMP:0000070 ! cell development phenotype
created_by: adrienne
creation_date: 2011-02-02T03:24:24Z
[Term]
id: OMP:0000092
name: heterocyst formation phenotype
def: "A cell development phenotype related to development of a heterocyst, a differentiated cell in certain cyanobacteria whose purpose is to fix nitrogen." [DOI:10.1046/j.1469-8137.1999.00505.x, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0043158 "heterocyst differentiation"
is_a: OMP:0000070 ! cell development phenotype
created_by: adrienne
creation_date: 2011-02-02T03:24:43Z
[Term]
id: OMP:0000093
name: akinete formation phenotype
def: "A cell development phenotype related to the development of an akinete, a thick-walled dormant cell derived from the enlargement of a vegetative cell." [doi:10.1046/j.1469-8137.1999.00505.x, OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.\n\nAkinetes typically are more resistant to dessication and other environmental stresses than vegetative cells.
xref: GO:0034302 "akinete formation"
is_a: OMP:0007142 ! asexual sporulation phenotype
created_by: adrienne
creation_date: 2011-02-02T03:25:02Z
[Term]
id: OMP:0000094
name: endospore formation phenotype
def: "A sporulation phenotype where development concerns formation of an endospore, a dormant, highly resistant spore with a thick wall that forms within the mother cell." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: FAO:0000019 "spore"
xref: GO:0034301 "endospore formation"
is_a: OMP:0007142 ! asexual sporulation phenotype
created_by: adrienne
creation_date: 2011-02-02T03:25:29Z
[Term]
id: OMP:0000095
name: spore germination phenotype
def: "A cell development phenotype regarding the physiological and developmental changes that occur in a spore following release from dormancy up to the earliest signs of growth (e.g. emergence from a spore wall)." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0009847 "spore germination"
is_a: OMP:0000070 ! cell development phenotype
created_by: adrienne
creation_date: 2011-02-02T03:25:47Z
[Term]
id: OMP:0000096
name: myxospore formation phenotype
def: "A sporulation phenotype related to development of a myxospore, a differentiated, resting cell usually within a fruiting body by Myxobacteria." [OMP:MCC]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
xref: GO:0034303 "myxospore formation"
is_a: OMP:0007142 ! asexual sporulation phenotype
created_by: adrienne
creation_date: 2011-02-02T03:26:41Z
[Term]
id: OMP:0000097
name: absence of chemotaxis
def: "A chemotaxis phenotype where a motile microbe doesn't display directed movement in response to a specific chemical concentration gradient." [OMP:MCC]
is_a: OMP:0000048 ! chemotaxis phenotype
created_by: adrienne
creation_date: 2011-02-02T03:28:13Z
[Term]
id: OMP:0000098
name: altered virulence
def: "A virulence phenotype where the rate, frequency, time, or extent of the ability of a microbe to cause disease in another organism (host) is altered relative to a designated control." [OMP:MCC]
synonym: "compatible interaction" EXACT []
synonym: "virulence" EXACT []
xref: PATO:0002146
is_a: OMP:0000068 ! virulence phenotype
created_by: mchibucos
creation_date: 2011-04-28T02:11:35Z
[Term]
id: OMP:0000099
name: hemolysis test
def: "A differential test phenotype that describes whether a cell or cells exhibits the ability to lyse red blood cells." [OMP:WAM]
is_a: OMP:0007130 ! differential test phenotype
created_by: mchibucos
creation_date: 2011-06-07T03:17:22Z
[Term]
id: OMP:0000100
name: colony morphology phenotype
def: "A multicellular phenotype dealing with the physical characteristics of an assemblage of microorganisms growing on a solid surface such as the surface of an agar culture medium." [ISBN:9780073302089, OMP:WAM]
synonym: "colony appearance phenotype" RELATED []
xref: APO:0000060 "colony appearance"
is_a: OMP:0007315 ! population morphology phenotype
created_by: Adrienne
creation_date: 2011-02-02T02:14:39Z
[Term]
id: OMP:0000101
name: microbial communication phenotype
def: "A multi-organism phenotype where microbial organisms communicate and coordinate their activities through chemical signals that either diffuse through the environment or remain cell associated." [OMP:JCH]
comment: This is a high-level term whose primary purpose is to organize terms beneath it in the ontology, and we expect that it will not be used for direct annotations. Please consider using a more specific term to annotate each phenotype.
subset: qc_do_not_manually_annotate
is_a: OMP:0005116 ! multi-organism process phenotype
created_by: Adrienne
creation_date: 2011-02-07T03:45:44Z
[Term]
id: OMP:0000102
name: colony opacity phenotype
def: "A colony morphology phenotype dealing with the degree to which light can pass through a colony." [OMP:WAM]
is_a: OMP:0000108 ! colony optical phenotype
created_by: mchibucos
creation_date: 2011-06-07T12:18:14Z
[Term]
id: OMP:0000103
name: colony form phenotype
def: "A colony morphology phenotype dealing with the basic shape or form of a colony or colonies." [OMP:WAM]
is_a: OMP:0000100 ! colony morphology phenotype
created_by: Adrienne
creation_date: 2011-02-02T02:41:50Z
[Term]
id: OMP:0000104
name: colony elevation phenotype
def: "A colony morphology phenotype dealing with the height or vertical growth of the colony." [OMP:WAM]
is_a: OMP:0000100 ! colony morphology phenotype
created_by: Adrienne
creation_date: 2011-02-02T02:42:12Z
[Term]
id: OMP:0000105
name: aerotolerant anaerobe
def: "A microbial phenotype that describes a microorganism that does not require oxygen gas (O2) for growth and doesn't utilize O2 even when it is present." [ISBN:9780073402406, OMP:WAM]
is_a: OMP:0007928 ! commonly used descriptors
created_by: mchibucos
creation_date: 2011-06-06T03:43:38Z