closes #4763;#4764;#4766;#4765;#4770

[PCarme]

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Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/fypo.owl
• Version IRI: None
• Loaded from: file:/__w/fypo/fypo/master/src/ontology/fypo-edit.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/fypo.owl
• Version IRI: None
• Loaded from: file:/__w/fypo/fypo/src/ontology/fypo-edit.owl

Ontology imports

Ontology annotations

abnormal protein export from nucleus during mating http://purl.obolibrary.org/obo/FYPO_1e20f284_2bf6_4f71_a326_e9d08636ac6a

Added

• abnormal protein export from nucleus during mating definition "A transport phenotype in which the export of protein from the nucleus during conjugation with cellular fusion is abnormal. Export of all proteins or a specific protein may be affected."

  • database_cross_reference "PomBase:pc"

• abnormal protein export from nucleus during mating label "abnormal protein export from nucleus during mating"@en

• abnormal protein export from nucleus during mating created_by "PomBase:pc"

• abnormal protein export from nucleus during mating creation_date "2026-01-14T14:30:03Z"^^dateTime

• Class: abnormal protein export from nucleus during mating

• abnormal protein export from nucleus during mating EquivalentTo has_part some
  (PATO_0000001 and (happens_during some GO_0000747) and (inheres_in some GO_0006611) and (qualifier some PATO_0000460))

• abnormal protein export from nucleus during mating SubClassOf abnormal nuclear transport

abnormal protein localization to P-bodies during mating http://purl.obolibrary.org/obo/FYPO_3e4d828d_b00f_4dda_8067_78218108c2dd

Added

• abnormal protein localization to P-bodies during mating creation_date "2026-01-14T13:59:09Z"

• abnormal protein localization to P-bodies during mating label "abnormal protein localization to P-bodies during mating"

• abnormal protein localization to P-bodies during mating definition "A cell phenotype in which the localization of a protein to P-bodies during conjugation with cellular fusion is abnormal. A protein may be observed in a place where it is not normally found, absent from a place where it is normally found, or both."

  • database_cross_reference "PomBase:pc"

• abnormal protein localization to P-bodies during mating created_by "PomBase:pc"

• Class: abnormal protein localization to P-bodies during mating

• abnormal protein localization to P-bodies during mating EquivalentTo has_part some
  (PATO_0000001 and (happens_during some GO_0000747) and (inheres_in some GO_0110012) and (qualifier some PATO_0000460))

• abnormal protein localization to P-bodies during mating SubClassOf abnormal protein localization during mating

abnormal protein localization to nucleus during mating http://purl.obolibrary.org/obo/FYPO_06fc56d7_8172_4fac_8c65_235f76472a97

Added

• abnormal protein localization to nucleus during mating definition "A cell phenotype in which the localization of a protein to the nucleus during conjugation with cellular fusion is abnormal. A protein may be observed in a place where it is not normally found, absent from a place where it is normally found, or both."

  • database_cross_reference "PomBase:pc"

• abnormal protein localization to nucleus during mating label "abnormal protein localization to nucleus during mating"@en

• abnormal protein localization to nucleus during mating created_by "PomBase:pc"

• abnormal protein localization to nucleus during mating creation_date "2026-01-14T14:51:20Z"^^dateTime

• Class: abnormal protein localization to nucleus during mating

• abnormal protein localization to nucleus during mating EquivalentTo has_part some
  (PATO_0000001 and (happens_during some GO_0000747) and (inheres_in some GO_0034504) and (qualifier some PATO_0000460))

• abnormal protein localization to nucleus during mating SubClassOf abnormal protein localization during mating

abolished protein export from nucleus during mating http://purl.obolibrary.org/obo/FYPO_c852428a_002f_4578_bae8_307d3ac1902f

Added

• abolished protein export from nucleus during mating created_by "PomBase:pc"

• abolished protein export from nucleus during mating creation_date "2026-01-14T14:36:59Z"^^dateTime

• abolished protein export from nucleus during mating label "abolished protein export from nucleus during mating"@en

• abolished protein export from nucleus during mating definition "A transport phenotype in which the export of protein from the nucleus during conjugation is abolished. Export of all proteins or a specific protein may be affected."

  • database_cross_reference "PomBase:pc"

• Class: abolished protein export from nucleus during mating

• abolished protein export from nucleus during mating EquivalentTo has_part some
  (PATO_0001558 and (during some GO_0000747) and (inheres_in some GO_0006611) and (qualifier some PATO_0000460))

• abolished protein export from nucleus during mating SubClassOf abnormal protein export from nucleus during mating

abolished protein localization to plasma membrane during cellular response to nitrogen starvation http://purl.obolibrary.org/obo/FYPO_cdf04d6a_d38f_4743_8de6_d54d8b152c8e

Added

• abolished protein localization to plasma membrane during cellular response to nitrogen starvation created_by "PomBase:pc"

• abolished protein localization to plasma membrane during cellular response to nitrogen starvation creation_date "2026-01-14T16:24:59Z"^^dateTime

• abolished protein localization to plasma membrane during cellular response to nitrogen starvation label "abolished protein localization to plasma membrane during cellular response to nitrogen starvation"@en

• abolished protein localization to plasma membrane during cellular response to nitrogen starvation definition "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the plasma membrane is abolished during a cellular response to nitrogen starvation."

  • database_cross_reference "PomBase:pc"

• Class: abolished protein localization to plasma membrane during cellular response to nitrogen starvation

• abolished protein localization to plasma membrane during cellular response to nitrogen starvation EquivalentTo has_part some
  (PATO_0001558 and (during some GO_0006995) and (inheres_in some GO_0072659))

• abolished protein localization to plasma membrane during cellular response to nitrogen starvation SubClassOf abnormal protein localization to plasma membrane

abolished protein localization to plasma membrane during vegetative growth http://purl.obolibrary.org/obo/FYPO_0002126

Added

• abolished protein localization to plasma membrane during vegetative growth EquivalentTo has_part some
  (PATO_0001558 and (during some GO_0072690) and (inheres_in some GO_0072659) and (qualifier some PATO_0000460))

decreased RNA localization to P-bodies during mating http://purl.obolibrary.org/obo/FYPO_6bd48a8e_0dea_4dac_b343_97b45f23b754

Added

• decreased RNA localization to P-bodies during mating creation_date "2026-01-14T15:06:38Z"^^dateTime

• decreased RNA localization to P-bodies during mating definition "A cell phenotype in which the localization of an RNA to P-bodies is decreased during conjugation with cellular fusion."

  • database_cross_reference "PomBase:pc"

• decreased RNA localization to P-bodies during mating label "decreased RNA localization to P-bodies during mating"@en

• decreased RNA localization to P-bodies during mating created_by "PomBase:pc"

• Class: decreased RNA localization to P-bodies during mating

• decreased RNA localization to P-bodies during mating SubClassOf abnormal RNA localization

decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus http://purl.obolibrary.org/obo/FYPO_f433fe0a_a08b_4ff3_bc61_b6bc3ad52115

Added

• decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus creation_date "2026-01-14T16:17:29Z"^^dateTime

• decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus definition "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the Golgi apparatus is decreased, and the protein is present in the nucleus instead."

  • database_cross_reference "PomBase:pc"

• decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus label "decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus"@en

• decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus created_by "PomBase:pc"

• Class: decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus

• decreased protein localization to Golgi apparatus, with protein mislocalized to nucleus SubClassOf decreased protein localization to Golgi apparatus

decreased protein localization to P-bodies during mating http://purl.obolibrary.org/obo/FYPO_17c29863_1ef0_473d_b774_91665d970a39

Added

• decreased protein localization to P-bodies during mating creation_date "2026-01-14T14:16:33Z"^^dateTime

• decreased protein localization to P-bodies during mating definition "A cell phenotype in which the localization of a protein to P-bodies during conjugation with cellular fusion is decreased."

  • database_cross_reference "PomBase:pc"

• decreased protein localization to P-bodies during mating created_by "PomBase:pc"

• decreased protein localization to P-bodies during mating label "decreased protein localization to P-bodies during mating"@en

• Class: decreased protein localization to P-bodies during mating

• decreased protein localization to P-bodies during mating EquivalentTo has_part some
  (PATO_0002052 and (happens_during some GO_0000747) and (inheres_in some GO_0110012))

• decreased protein localization to P-bodies during mating SubClassOf abnormal protein localization to P-bodies during mating

decreased protein localization to cell surface, with protein mislocalized to cytoplasm http://purl.obolibrary.org/obo/FYPO_c4e3aaab_cb6e_4dfc_8991_65d7b1140548

Added

• decreased protein localization to cell surface, with protein mislocalized to cytoplasm creation_date "2026-01-14T16:12:44Z"^^dateTime

• decreased protein localization to cell surface, with protein mislocalized to cytoplasm label "decreased protein localization to cell surface, with protein mislocalized to cytoplasm"@en

• decreased protein localization to cell surface, with protein mislocalized to cytoplasm created_by "PomBase:pc"

• decreased protein localization to cell surface, with protein mislocalized to cytoplasm definition "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the cell surface is decreased, and the protein is present in the cytoplasm instead."

  • database_cross_reference "PomBase:pc"

• Class: decreased protein localization to cell surface, with protein mislocalized to cytoplasm

• decreased protein localization to cell surface, with protein mislocalized to cytoplasm SubClassOf decreased protein localization to cell surface

decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating http://purl.obolibrary.org/obo/FYPO_33838f7a_5541_4063_a145_30f4c12c7e7c

Added

• decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating label "decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating"@en

• decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating creation_date "2026-01-14T14:57:51Z"^^dateTime

• decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating created_by "PomBase:pc"

• decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating definition "A cell phenotype observed during conjugation with cellular fusion in which the localization of a protein to the nucleus is decreased, and some of the protein is present in the cytoplasm instead."

  • database_cross_reference "PomBase:pc"

• Class: decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating

• decreased protein localization to nucleus, with protein mislocalized to cytoplasm during mating SubClassOf abnormal protein localization to nucleus during mating

decreased protein localization to plasma membrane at cell division site during vegetative growth http://purl.obolibrary.org/obo/FYPO_0005290

Removed

• decreased protein localization to plasma membrane at cell division site during vegetative growth SubClassOf abnormal protein localization to plasma membrane during vegetative growth

Added

• decreased protein localization to plasma membrane at cell division site during vegetative growth SubClassOf decreased protein localization to plasma membrane during vegetative growth

decreased protein localization to plasma membrane during cellular response to nitrogen starvation http://purl.obolibrary.org/obo/FYPO_eace7f25_18a6_4a9e_b19f_5183e94b5050

Added

• decreased protein localization to plasma membrane during cellular response to nitrogen starvation created_by "PomBase:pc"

• decreased protein localization to plasma membrane during cellular response to nitrogen starvation label "decreased protein localization to plasma membrane during cellular response to nitrogen starvation"@en

• decreased protein localization to plasma membrane during cellular response to nitrogen starvation creation_date "2026-01-14T16:32:08Z"^^dateTime

• decreased protein localization to plasma membrane during cellular response to nitrogen starvation definition "A cell phenotype observed in the vegetative growth phase of the life cycle in which the localization of a protein to the plasma membrane is decreased during a cellular response to nitrogen starvation."

  • database_cross_reference "PomBase:pc"

• Class: decreased protein localization to plasma membrane during cellular response to nitrogen starvation

• decreased protein localization to plasma membrane during cellular response to nitrogen starvation EquivalentTo has_part some
  (PATO_0002052 and (during some GO_0006995) and (inheres_in some GO_0072659))

• decreased protein localization to plasma membrane during cellular response to nitrogen starvation SubClassOf abnormal protein localization to plasma membrane

increased DNA damage at rDNA during vegetative growth http://purl.obolibrary.org/obo/FYPO_99645fcb_9466_451f_8a7e_ccc7ff917c50

Added

• increased DNA damage at rDNA during vegetative growth label "increased DNA damage at rDNA during vegetative growth"@en

• increased DNA damage at rDNA during vegetative growth definition "A cell phenotype in which the amount of DNA damage measured at ribosomal DNA in a cell is greater than normal during vegetative growth. The number, extent, or both of damage sites may be increased."

  • database_cross_reference "PomBase:pc"

• increased DNA damage at rDNA during vegetative growth creation_date "2026-01-14T16:10:41Z"^^dateTime

• increased DNA damage at rDNA during vegetative growth created_by "PomBase:pc"

• Class: increased DNA damage at rDNA during vegetative growth

• increased DNA damage at rDNA during vegetative growth SubClassOf increased DNA damage during vegetative growth

increased histone H2B-K33 acetylation during vegetative growth http://purl.obolibrary.org/obo/FYPO_005f2da4_3552_424d_8ead_cc62a44468bb

Added

• increased histone H2B-K33 acetylation during vegetative growth created_by "PomBase:pc"

• increased histone H2B-K33 acetylation during vegetative growth definition "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which acetylation of lysine at position 33 of histone H2B occurs to a higher extent than normal."

  • database_cross_reference "PomBase:pc"

• increased histone H2B-K33 acetylation during vegetative growth label "increased histone H2B-K33 acetylation during vegetative growth"@en

• increased histone H2B-K33 acetylation during vegetative growth creation_date "2026-01-14T16:01:49Z"^^dateTime

• Class: increased histone H2B-K33 acetylation during vegetative growth

• increased histone H2B-K33 acetylation during vegetative growth SubClassOf increased histone acetylation during vegetative growth

increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth http://purl.obolibrary.org/obo/FYPO_9a366ebf_3b90_40b7_8da2_7528dd2fe6ad

Added

• increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth creation_date "2026-01-14T15:52:33Z"^^dateTime

• increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth definition "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which trimethylation of lysine at position 4 of histone H3 in centromere outer repeat regions occurs to a greater extent than normal."

  • database_cross_reference "PomBase:pc"

• increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth created_by "PomBase:pc"

• increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth label "increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth"@en

• Class: increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth

• increased histone H3-K4 trimethylation at centromere outer repeat during vegetative growth SubClassOf increased histone H3-K4 trimethylation at centromere during vegetative growth

increased histone H3-K9 monomethylation during vegetative growth http://purl.obolibrary.org/obo/FYPO_915de2fb_1c41_4085_9a04_ee1b196aaf93

Added

• increased histone H3-K9 monomethylation during vegetative growth created_by "PomBase:pc"

• increased histone H3-K9 monomethylation during vegetative growth label "increased histone H3-K9 monomethylation during vegetative growth"@en

• increased histone H3-K9 monomethylation during vegetative growth creation_date "2026-01-14T15:56:21Z"^^dateTime

• increased histone H3-K9 monomethylation during vegetative growth definition "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which monomethylation of lysine at position 9 of histone H3 occurs to a greater extent than normal."

  • database_cross_reference "PomBase:pc"

• Class: increased histone H3-K9 monomethylation during vegetative growth

• increased histone H3-K9 monomethylation during vegetative growth SubClassOf increased histone H3-K9 methylation during vegetative growth

increased protein localization to nucleus during mating http://purl.obolibrary.org/obo/FYPO_6b309ee7_7242_4264_89ea_c2aced30ded5

Added

• increased protein localization to nucleus during mating creation_date "2026-01-14T14:54:50Z"^^dateTime

• increased protein localization to nucleus during mating created_by "PomBase:pc"

• increased protein localization to nucleus during mating definition "A cell phenotype in which the localization of a protein to the nucleus is increased during conjugation with cellular fusion."

  • database_cross_reference "PomBase:pc"

• increased protein localization to nucleus during mating label "increased protein localization to nucleus during mating"@en

• Class: increased protein localization to nucleus during mating

• increased protein localization to nucleus during mating EquivalentTo has_part some
  (PATO_0002051 and (happens_during some GO_0000747) and (inheres_in some GO_0034504))

• increased protein localization to nucleus during mating SubClassOf abnormal protein localization to nucleus during mating

increased protein localization to nucleus in gametes http://purl.obolibrary.org/obo/FYPO_aae4bb1e_cee1_4875_9cc4_0cff6c094d6a

Added

• increased protein localization to nucleus in gametes created_by "PomBase:pc"

• increased protein localization to nucleus in gametes definition "A cell phenotype in which the localization of a protein to the nucleus is increased in gametes. Note that this phenotype is no longer observed in the zygote after cellular fusion."

  • database_cross_reference "PomBase:pc"

• increased protein localization to nucleus in gametes label "increased protein localization to nucleus in gametes"@en

• increased protein localization to nucleus in gametes creation_date "2026-01-14T15:47:56Z"^^dateTime

• Class: increased protein localization to nucleus in gametes

• increased protein localization to nucleus in gametes SubClassOf abnormal protein localization

increased replication fork stalling during cellular response to DNA damage http://purl.obolibrary.org/obo/FYPO_dafaf14e_7782_437f_ac1c_3b91af3d7325

Added

• increased replication fork stalling during cellular response to DNA damage creation_date "2026-01-14T16:06:45Z"^^dateTime

• increased replication fork stalling during cellular response to DNA damage definition "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which replication forks stall at a higher frequency in mutant cells than in wild type during a cellular response to DNA damage."

  • database_cross_reference "PomBase:pc"

• increased replication fork stalling during cellular response to DNA damage has_related_synonym "increased replication fork stalling during cellular response to DNA damage during mitotic cell cycle"

  • database_cross_reference "PomBase:pc"

• increased replication fork stalling during cellular response to DNA damage has_exact_synonym "increased replication fork stalling during cellular response to DNA damage during vegetative growth"

  • database_cross_reference "PomBase:pc"

• increased replication fork stalling during cellular response to DNA damage has_obo_namespace "fission_yeast_phenotype"

• increased replication fork stalling during cellular response to DNA damage comment "Use this term in cases where a DNA damaging agent causes increased replication fork stalling at a lower frequency in mutant cells than in wild type."

• increased replication fork stalling during cellular response to DNA damage has_exact_synonym "increased frequency of replication fork stalling during cellular response to DNA damage"

  • database_cross_reference "PomBase:pc"

• increased replication fork stalling during cellular response to DNA damage label "increased replication fork stalling during cellular response to DNA damage"@en

• increased replication fork stalling during cellular response to DNA damage created_by "PomBase:pc"

• Class: increased replication fork stalling during cellular response to DNA damage

• increased replication fork stalling during cellular response to DNA damage SubClassOf abnormal mitotic DNA replication

normal histone H2B-K33 acetylation during vegetative growth http://purl.obolibrary.org/obo/FYPO_02bf0b41_6d6c_42f5_856a_f8bc202c6592

Added

• normal histone H2B-K33 acetylation during vegetative growth definition "A cellular process phenotype observed in the vegetative growth phase of the life cycle in which acetylation of lysine at position 33 of histone H2B is normal (i.e. indistinguishable from wild type)."

  • database_cross_reference "PomBase:pc"

• normal histone H2B-K33 acetylation during vegetative growth label "normal histone H2B-K33 acetylation during vegetative growth"@en

• normal histone H2B-K33 acetylation during vegetative growth created_by "PomBase:pc"

• normal histone H2B-K33 acetylation during vegetative growth creation_date "2026-01-14T15:59:40Z"^^dateTime

• Class: normal histone H2B-K33 acetylation during vegetative growth

• normal histone H2B-K33 acetylation during vegetative growth SubClassOf normal histone acetylation during vegetative growth

Changes to ontology after reasoner runs

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Errors reported

Level	Rule Name	Subject	Property	Value
WARN	missing_definition	output_of	definition	
WARN	missing_definition	preceded_by	definition	
WARN	missing_definition	precedes	definition	
WARN	missing_obsolete_label	DEPRECATED increased subtelomere-derived RNA level	rdfs:label	DEPRECATED increased subtelomere-derived RNA level
WARN	missing_obsolete_label	DEPRECATED increased protein localization to chromatin at centromere outer repeat	rdfs:label	DEPRECATED increased protein localization to chromatin at centromere outer repeat
INFO	lowercase_definition	has_output	definition	p has output c if either: p has direct output c or p has output input c. Implies that if p happens, c always ensues.
INFO	missing_superclass	phenotype	rdfs:subClassOf