organism interacts with chemical

Provenance

Source

METPO (2025-11-25)

Definition source

DOI:10.1146/annurev.micro.55.1.485

Children (58)

• accumulates METPO:2000210
• assimilates METPO:2000002
• builds acid from METPO:2000003
• builds base from METPO:2000004
• builds gas from METPO:2000005
• degrades METPO:2000007
• disproportionates METPO:2000200
• does not accumulate METPO:2000230
• does not assimilate METPO:2000027
• does not build acid from METPO:2000028
• does not build base from METPO:2000029
• does not build gas from METPO:2000030
• does not degrade METPO:2000033
• does not disproportionate METPO:2000220
• does not ferment METPO:2000037
• does not hydrolyze METPO:2000039
• does not oxidize METPO:2000042
• does not produce METPO:2000222
• does not reduce METPO:2000044
• does not transport METPO:2000227
• does not use as carbon source METPO:2000031
• does not use as electron acceptor METPO:2000034
• does not use as electron donor METPO:2000035
• does not use as energy source METPO:2000036
• does not use as nitrogen source METPO:2000040
• does not use as sulfur source METPO:2000047
• does not use for aerobic catabolization METPO:2000021
• does not use for aerobic growth METPO:2000022
• does not use for anaerobic catabolization METPO:2000023
• does not use for anaerobic growth METPO:2000024
• does not use for anaerobic growth in the dark METPO:2000025
• does not use for anaerobic growth with light METPO:2000026
• does not use for growth METPO:2000038
• does not use for respiration METPO:2000046
• does not use in other way METPO:2000041
• ferments METPO:2000011
• hydrolyzes METPO:2000013
• is not required for growth METPO:2000045
• oxidizes METPO:2000016
• produces METPO:2000202
• reduces METPO:2000017
• requires for growth METPO:2000018
• transports METPO:2000207
• uses as carbon source METPO:2000006
• uses as electron acceptor METPO:2000008
• uses as electron donor METPO:2000009
• uses as energy source METPO:2000010
• uses as nitrogen source METPO:2000014
• uses as sulfur source METPO:2000020
• uses for aerobic catabolization METPO:2000032
• uses for aerobic growth METPO:2000043
• uses for anaerobic catabolization METPO:2000048
• uses for anaerobic growth METPO:2000049
• uses for anaerobic growth in the dark METPO:2000050
• uses for anaerobic growth with light METPO:2000051
• uses for growth METPO:2000012
• uses for respiration METPO:2000019
• uses in other way METPO:2000015

Nearest neighbors in embedding space

Top-8 cosine-similar METPO traits from the 2026-04-25 deepwalk (512-D).

• metabolism uses as carbon source 0.962
• metabolism oxidizes 0.962
• metabolism does not build gas from 0.962
• metabolism reduces 0.961
• metabolism builds base from 0.961
• metabolism uses as electron acceptor 0.961
• metabolism builds gas from 0.961
• metabolism ferments 0.960

Curation history

1. 2026-05-05T01:35:46.950239+00:00 · SEEDED_FROM_METPO · seed_from_metpo

   imported from data/raw/metpo.owl (OBJECT_PROPERTY)

2. 2026-05-10T00:00:00-07:00 · DEPRECATED_PROPERTY_RECORD · codex

   Deprecated generic metabolism relation carrier; later replacement should use more specific trait records that combine the relation with the chemical, phenotype, quality, compartment, enzyme or activity target, growth context, measurement, or other entity.

3. 2026-05-16T08:50:00-07:00 · UNDEPRECATED_AS_COMPOSITION_PRIMITIVE · claude

   Restored from DEPRECATED to REVIEWED under the predicate+class composition pattern (intended use: <organism> + this predicate + CHEBI chemical class). Added DOI/PMID-backed definition, evidence, and explicit domain/range slots.

4. 2026-05-17T10:00:00-07:00 · ADDED_EXTERNAL_PREDICATE_XREF · claude

   Added xrefs ['MICRO:0000975'] to record an external equivalence predicate.

5. 2026-05-17T15:00:00-07:00 · REVERTED_NON_EQUIVALENT_XREF · claude

   Removed MICRO:0000975 xref per Copilot review of PR #56. This record is the root for ALL organism-to-chemical interactions (produces, uses-as-X, ferments, etc.), while MICRO:0000975 "uses chemical entity" is narrower (use relations only). Encoding it as an xrefs equivalence would mismap downstream consumers. No other ontology has a sufficiently broad organism-to-chemical root predicate, so xrefs left empty.