slightly halophilic

METPO:1000625 · CLASS · REVIEWED

A halophily preference in which an organism requires low to moderate salt concentrations (0.3 to 0.8 M NaCl) for optimal growth.

Slight halophile low-salt osmoadaptation mechanism

Evidence-backed causal sketch linking slight halophily to low or moderate NaCl and compatible-solute osmoprotection.

Slight halophile low-salt osmoadaptation mechanism Interactive directed graph showing evidence-backed causal relationships for slightly halophilic.

Edge evidence

  • low to moderate NaCl enables slightly halophilic RO:0002327

    Slight halophily is a salt-growth preference at lower salinity than moderate or extreme halophily.

    • DOI:10.1186/1746-1448-4-2 minimum salt concentration required for growth Review supports halophily as a continuum of salt growth requirements.
  • low to moderate NaCl causes osmotic stress biolink:causes

    Even lower salinity preferences involve osmotic adjustment to environmental salt.

    • DOI:10.1186/1746-1448-4-2 salt relationships Review describes growth in relation to minimum, optimum, and upper salt limits.
  • compatible solutes mitigates osmotic stress METPO:2007407

    Compatible solutes provide osmotic balance without disrupting metabolism.

    • DOI:10.1371/journal.pone.0168818 do not disturb the cell's metabolism Supports compatible solutes as non-disruptive osmoprotectants.
  • osmoprotectant transport accumulates compatible solutes METPO:2000210

    Uptake systems can accumulate compatible solutes for salt adaptation.

    • DOI:10.1093/femsre/fuy009 organic osmotic solutes Review supports accumulation of organic osmotic solutes in bacterial osmoadaptation.
  • ectABC/ectBACD gene cluster enables ectoine biosynthesis RO:0002327

    The ect gene cluster encodes the enzymes that carry out ectoine biosynthesis.

    • DOI:10.1128/aem.01905-23 ectoine biosynthesis genes are denoted by ectABC; ectBACD up-regulated as an osmoadaptation system.
  • ectoine biosynthesis produces ectoine METPO:2000202

    Ectoine biosynthesis produces the compatible solute ectoine.

    • DOI:10.1128/aem.01905-23 Wild-type accumulates ectoine as its major osmolyte via the ectABC pathway.
  • ectoine increases salt tolerance RO:0002213

    Accumulation of ectoine as a compatible solute increases salt tolerance.

    • DOI:10.1128/aem.01905-23 Wild-type accumulates ectoine as its major osmolyte while the ectABC-deleted strain is salt-sensitive.
  • osmoprotectant transport increases salt tolerance RO:0002213

    Uptake of compatible solutes is a general salt-out osmoadaptation strategy that raises salt tolerance.

    • DOI:10.1093/femsre/fuy026 Salt-out strategists exclude salt and/or synthesize or uptake compatible solutes (e.g. glycine betaine); dominant strategy in many halophilic bacteria.
  • Na+/K+ transcriptional induction supports ion homeostasis during salt stress

    Coordinated induction of Na+/K+ transcription supports ion homeostasis during salt stress.

    • DOI:10.1038/s42003-022-04319-3 Coordinated induction of Na+/K+ transcription and ectoine, proline, and betaine biosynthesis under salt stress.

Provenance

Source
METPO (2025-11-25)
Definition source
PMID:12501437

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1000625 [-3.580, -0.620, -1.375, -1.507, …]

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 Paraliobacillus ryukyuensis organism example with PMID-backed evidence.

  3. · ADDED_CAUSAL_GRAPH · codex

    Added DOI-backed causal graph for slight halophile compatible-solute osmoadaptation.

  4. · GROUND_CAUSAL_PREDICATES · claude

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

  5. · GROUND_CAUSAL_PREDICATES · claude

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

  6. · RENAME_PREDICATE_LABELS · claude

    Renamed 1 causal-edge predicate label(s) to align with existing groundings: supports → enables ×1.

  7. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002327×1).

  8. · GROUND_CAUSAL_NODES · claude

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

  9. · FIX_NODE_GROUNDING_CURIE · claude

    Overwrote 1 causal-node grounding(s) to corrected CURIEs (phase-2 id-label fix; verified vs OAK).

  10. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (METPO:2000210×1).

  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 5 evidence-backed generic edges (6 new nodes) from the deep-research report.

  13. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 4 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002213×2, RO:0002327×1, METPO:2000202×1).

  14. · GROUND_CAUSAL_NODES · claude

    Grounded 2 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0019491×1, CHEBI:27592×1).