halophilic

METPO:1000620 · CLASS · REVIEWED

A halophily preference in which an organism requires high concentrations of salt for growth and survival.

Halophilic osmoadaptation mechanism

Evidence-backed causal sketch linking halophilic growth to high-salt environments and osmotic adaptation strategies.

Halophilic osmoadaptation mechanism Interactive directed graph showing evidence-backed causal relationships for halophilic.

Edge evidence

  • high-salt environment selects for halophilic METPO:2007401

    Halophilic microorganisms are adapted to growth in high-salt environments.

    • DOI:10.1093/femsre/fuy009 Hypersaline environments ... inhabited by halophilic Review supports hypersaline habitats as the environmental context for halophily.
  • sodium chloride causes osmotic stress biolink:causes

    Elevated NaCl creates osmotic pressure that requires cellular adaptation.

    • DOI:10.1186/1746-1448-4-2 ways they cope with the high salt concentrations Review frames halophily around coping with high environmental salt.
  • compatible solutes mitigates osmotic stress METPO:2007407

    Compatible solutes are one major osmoadaptation mechanism in halophilic microorganisms.

    • DOI:10.1093/femsre/fuy009 synthesize organic osmotic solutes Supports organic compatible-solute accumulation as an osmotic adaptation mechanism.
  • salt-in strategy mitigates osmotic stress METPO:2007407

    Salt-in ion accumulation is an alternative osmoadaptation strategy.

    • DOI:10.1093/femsre/fuy009 KCl accumulating Halobacterium salinarum Supports intracellular KCl accumulation as a high-salt adaptation.
  • compatible solutes contributes to halophilic RO:0002326

    Compatible-solute accumulation supports growth under high salinity.

    • DOI:10.1371/journal.pone.0168818 allows microorganisms to cope with high salinities Halomonas elongata study supports compatible solutes as a mechanism enabling halophilic growth.
  • Na+/H+ antiporter expels sodium ion

    Sodium is excluded from the cytoplasm with the help of an Na+/H+ antiporter.

    • DOI:10.3390/microorganisms12081738 sodium is excluded from the cytoplasm with the help of an Na+/H+ antiporter
  • K+ uniport system imports potassium ion METPO:2000208

    Potassium enters the cell through a uniport system during salt-in osmoadaptation.

    • DOI:10.3390/microorganisms12081738 Potassium enters the cell through a uniport system
  • salt-in strategy associated with acidified proteome biolink:associated_with

    Organisms employing the salt-in strategy exhibit an acidified proteome.

    • DOI:10.3390/microorganisms12081738 microorganisms employing this strategy exhibit an acidified proteome
  • sodium chloride induces oxidative stress

    NaCl shock induces oxidative stress in addition to osmotic stress.

    • DOI:10.1186/s12934-024-02358-5 NaCl shock induced two major stresses, namely osmotic stress and oxidative stress
  • ectABC operon biosynthesizes ectoine

    The conserved ectABC operon performs de novo biosynthesis of ectoine.

    • DOI:10.1128/aem.00479-23 Biosynthesis of ectoine is de novo from L-aspartic acid, performed by the conserved operon ectABC
  • L-aspartic acid is precursor of ectoine

    Ectoine is biosynthesized de novo from L-aspartic acid.

    • DOI:10.1128/aem.00479-23 Biosynthesis of ectoine is de novo from L-aspartic acid
  • ectoine is a compatible solutes rdfs:subClassOf

    Ectoine is a major organic compatible solute used in osmoadaptation.

    • DOI:10.1128/aem.00479-23 Ectoine is a canonical compatible solute synthesized via the ectABC operon.

Provenance

Source
METPO (2025-11-25)
Definition source
PMID:19329623

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1000620 [-1.039, -0.924, -1.635, -0.067, …]

512-dim DeepWalkSkipGramEnsmallen embedding from kg-microbe (2026-04-25).

Nearest neighbors in embedding space

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

Curation history

  1. · SEEDED_FROM_METPO · seed_from_metpo

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

  2. · CURATED_WITH_ORGANISM_EXAMPLE · codex

    Added Salinicoccus albus organism example with PMID-backed evidence.

  3. · ADDED_CAUSAL_GRAPH · codex

    Added DOI-backed causal graph for halophilic osmoadaptation mechanisms.

  4. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002326×1).

  5. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (biolink:causes×1).

  6. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 3 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (METPO:2007407×2, METPO:2007401×1).

  7. · GROUND_CAUSAL_NODES · claude

    Grounded 2 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0006970×1, CHEBI:65015×1).

  8. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (ENVO:01000687×1).

  9. · FIX_NODE_GROUNDING_CURIE · claude

    Overwrote 2 causal-node grounding(s) to corrected CURIEs (phase-2 id-label fix; verified vs OAK).

  10. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (METPO:1007720×1).

  11. · REMOVE_REDUNDANT_SYNONYM · claude

    Removed 1 synonym(s) whose text duplicated the label (seeder redundancy; no information lost).

  12. · ENRICH_CAUSAL_GRAPH · claude

    Added 7 evidence-backed generic edges (9 new nodes) from the deep-research report.

  13. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 3 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (METPO:2000208×1, biolink:associated_with×1, rdfs:subClassOf×1).

  14. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (UniProtKB:A0A068T423×1).

  15. · GROUND_CAUSAL_NODES · claude

    Grounded 3 causal-node grounding field(s) via mappings/node_grounding.tsv (CHEBI:29101×1, CHEBI:29103×1, CHEBI:27592×1).